Publications


2018

Björn Drobot, Juan M Iglesias-Artola, Kristian Le Vay, Viktoria Mayr, Mrityunjoy Kar, Moritz Kreysing, Hannes Mutschler, T-Y Dora Tang
Compartmentalised RNA catalysis in membrane-free coacervate protocells.
Nat Commun, 9(1) Art. No. 3643 (2018)
Jun Hoe Lee, Kevin M Lewis, Timothy W Moural, Bogdan Kirilenko, Barbara Borgonovo, Gisa Prange, Manfred Koessl, Stefan Huggenberger, ChulHee Kang, Michael Hiller
Molecular parallelism in fast-twitch muscle proteins in echolocating mammals
Sci Adv, 1-1 (2018)
Jie Wang, Jeong-Mo Choi, Alex S Holehouse, Hyun O. Lee, Xiaojie Zhang, Marcus Jahnel, Shovamayee Maharana, Regis P. Lemaitre, Andrei I. Pozniakovsky, David N. Drechsel, Ina Poser, Rohit V Pappu, Simon Alberti, Anthony Hyman
A Molecular Grammar Governing the Driving Forces for Phase Separation of Prion-like RNA Binding Proteins.
Cell, 174(3) 688-699 (2018)
Jana Královicová, Ivana Ševcíková, Eva Stejskalová, Mina Obuca, Michael Hiller, David R. Stanek, Igor Vorechovský
PUF60-activated exons uncover altered 3' splice-site selection by germline missense mutations in a single RRM.
Nucleic Acids Res, 46(12) 6166-6187 (2018)
Martin Raden, Syed M Ali, Omer S Alkhnbashi, Anke Busch, Fabrizio Costa, Jason A Davis, Florian Eggenhofer, Rick Gelhausen, Jens Georg, Steffen Heyne, Michael Hiller, Kousik Kundu, Robert Kleinkauf, Steffen C Lott, Mostafa M Mohamed, Alexander Mattheis, Milad Miladi, Andreas S Richter, Sebastian Will, Joachim Wolff, Patrick R Wright, Rolf Backofen
Freiburg RNA tools: a central online resource for RNA-focused research and teaching.
Nucleic Acids Res, 46(W1) 25-29 (2018)
Rory M Power, Jan Huisken
Adaptable, illumination patterning light sheet microscopy.
Sci Rep, 8(1) Art. No. 9615 (2018)
Simon Alberti, Shambaditya Saha, Jeffrey Woodruff, Titus Franzmann, Jie Wang, Anthony Hyman
A User's Guide for Phase Separation Assays with Purified Proteins.
J Mol Biol, Art. No. doi: 10.1016/j.jmb.2018.06.038 (2018)
Miroslav P Ivanov, Rene Ladurner, Ina Poser, Rebecca Beveridge, Evelyn Rampler, Otto Hudecz, Maria Novatchkova, Jean-Karim Hériché, Gordana Wutz, Petra van der Lelij, Emanuel Kreidl, James R A Hutchins, Heinz Axelsson-Ekker, Jan Ellenberg, Anthony Hyman, Karl Mechtler, Jan-Michael Peters
The replicative helicase MCM recruits cohesin acetyltransferase ESCO2 to mediate centromeric sister chromatid cohesion.
EMBO J, Art. No. e97150 (2018)
Sonja Kroschwald, Matthias Munder, Shovamayee Maharana, Titus Franzmann, Doris Richter, Martine Ruer, Anthony Hyman, Simon Alberti
Different Material States of Pub1 Condensates Define Distinct Modes of Stress Adaptation and Recovery.
Cell Rep, 23(11) 3327-3339 (2018)
Ewa A Miendlarzewska, Sara Ciucci, Carlo Vittorio Cannistraci, Daphne Bavelier, Sophie Schwartz
Reward-enhanced encoding improves relearning of forgotten associations.
Sci Rep, 8(1) 8557-8557 (2018)
Virag Sharma, Thomas Lehmann, Heiko Stuckas, Liane Funke, Michael Hiller
Loss of RXFP2 and INSL3 genes in Afrotheria shows that testicular descent is the ancestral condition in placental mammals.
PLoS Biol, 16(6) Art. No. e2005293 (2018)
Alessandro Muscoloni, Carlo Vittorio Cannistraci
A nonuniform popularity-similarity optimization (nPSO) model to efficiently generate realistic complex networks with communities
New J Phys, 20 Art. No. doi: 10.1088/1367-2630/aac06f (2018)
Richard Wheeler, Anthony Hyman
Controlling compartmentalization by non-membrane-bound organelles.
Philos Trans R Soc Lond B Biol Sci, 373(1747) Art. No. 20170193 (2018)
Alessandro Muscoloni, Carlo Vittorio Cannistraci
Leveraging the nonuniform PSO network model as a benchmark for performance evaluation in community detection and link prediction
New J Phys, Art. No. doi: 10.1088/1367-2630/aac6f9 (2018)
Anastasia Felker, Karin D Prummel, Anne M Merks, Michaela Mickoleit, Eline C Brombacher, Jan Huisken, Daniela Panáková, Christian Mosimann
Continuous addition of progenitors forms the cardiac ventricle in zebrafish.
Nat Commun, 9(1) Art. No. 2001 (2018)
David Oriola, Daniel Needleman, Jan Brugués
The Physics of the Metaphase Spindle.
Ann Rev Biophys, 47 655-673 (2018)
Bruce Alberts, Tony Hyman, Christopher L. Pickett, Shirley Tilghman, Harold Varmus
Improving support for young biomedical scientists.
Science, 360(6390) 716-718 (2018)
Petra Schwille, Joachim P. Spatz, Katharina Landfester, Eberhard Bodenschatz, Stephan Herminghaus, Victor Sourjik, Tobias Erb, Philippe Bastiaens, Reinhard Lipowsky, Anthony Hyman, Peter Dabrock, Jean-Christophe Baret, Tanja Vidakovic-Koch, Peter Bieling, Rumiana Dimova, Hannes Mutschler, Tom Robinson, Dora Tang, Seraphine Wegner, Kai Sundmacher
MaxSynBio - Avenues towards creating cells from the bottom up.
Angew Chem Int Ed Engl, Art. No. doi: 10.1002/anie.201802288 (2018)
Shovamayee Maharana, Jie Wang, Dimitrios Papadopoulos, Doris Richter, Andrei I. Pozniakovsky, Ina Poser, Marc Bickle, Sandra Rizk, Jordina Guillén-Boixet, Titus Franzmann, Marcus Jahnel, Lara Marrone, Young-Tae Chang, Jared Sterneckert, Pavel Tomancak, Anthony Hyman, Simon Alberti
RNA buffers the phase separation behavior of prion-like RNA binding proteins.
Science, 360(6391) 918-921 (2018)
Matthäus Mittasch, Anatol Fritsch, Michael Nestler, Juan M Iglesias Artola, Kaushikaram Subramanian, Heike Petzold, Mrityunjoy Kar, Axel Voigt, Moritz Kreysing
Active gelation breaks time-reversal-symmetry of mitotic chromosome mechanics
bioRxiv, Art. No. 296566 (2018)
Carlo Vittorio Cannistraci, Tuomo Nieminen, Masahiro Nishi, Levon M Khachigian, Juho Viikilä, Mika Laine, Domenico Cianflone, Attilio Maseri, Khung Keong Yeo, Ravinay Bhindi, Enrico Ammirati
"Summer Shift": A Potential Effect of Sunshine on the Time Onset of ST-Elevation Acute Myocardial Infarction.
J Am Heart Assoc, 7(8) Art. No. doi: 10.1161/JAHA.117.006878 (2018)
Martin Weigert, Kaushikaram Subramanian, Sebastian T. Bundschuh, Eugene W Myers, Moritz Kreysing
Biobeam-Multiplexed wave-optical simulations of light-sheet microscopy.
PLoS Comput Biol, 14(4) Art. No. e1006079 (2018)
Carsten Wolff, Jean-Yves Tinevez, Tobias Pietzsch, Evangelia Stamataki, Benjamin Harich, Léo Guignard, Stephan Preibisch, Spencer Shorte, Patrick Keller, Pavel Tomancak, Anastasios Pavlopoulos
Multi-view light-sheet imaging and tracking with the MaMuT software reveals the cell lineage of a direct developing arthropod limb.
Elife, 7 Art. No. e34410 (2018)
Virag Sharma, Nikolai Hecker, Juliana Roscito, Leo Foerster, Björn Langer, Michael Hiller
A genomics approach reveals insights into the importance of gene losses for mammalian adaptations.
Nat Commun, 9(1) Art. No. 1215 (2018)
Marta Florio, Michael Heide, Anneline Pinson, Holger Brandl, Mareike Albert, Sylke Winkler, Pauline Wimberger, Wieland B. Huttner, Michael Hiller
Evolution and cell-type specificity of human-specific genes preferentially expressed in progenitors of fetal neocortex.
Elife, 7 Art. No. e32332 (2018)
Radoslav Aleksandrov, Anton Dotchev, Ina Poser, Dragomir Krastev, Georgi Georgiev, Greta C Panova, Yordan Babukov, Georgi Danovski, Teodora Dyankova, Lars Hubatsch, Aneliya Ivanova, Aleksandar Atemin, Marina N Nedelcheva-Veleva, Susanne Hasse, Mihail Sarov, Frank Buchholz, Anthony Hyman, Stephan W. Grill, Stoyno Stoynov
Protein Dynamics in Complex DNA Lesions.
Mol Cell, 69(6) 1046-1061 (2018)
Matthäus Mittasch, Peter Gross, Michael Nestler, Anatol W Fritsch, Christiane Iserman, Mrityunjoy Kar, Matthias Munder, Axel Voigt, Simon Alberti, Stephan W. Grill, Moritz Kreysing
Non-invasive perturbations of intracellular flow reveal physical principles of cell organization.
Nat Cell Biol, 20(3) 344-351 (2018)
FoSheng Hsu, Stephanie Spannl, Charles Ferguson, Anthony Hyman, Robert G. Parton, Marino Zerial
Rab5 and Alsin regulate stress-activated cytoprotective signaling on mitochondria.
Elife, 7 Art. No. e32282 (2018)
Susanne Wegmann, Bahareh Eftekharzadeh, Katharina Tepper, Katarzyna M Zoltowska, Rachel E Bennett, Simon Dujardin, Pawel R Laskowski, Danny MacKenzie, Tarun Kamath, Caitlin Commins, Charles Vanderburg, Allyson D Roe, Zhanyun Fan, Amandine M Molliex, Amayra Hernandez-Vega, Daniel Muller, Anthony Hyman, Eckhard Mandelkow, J Paul Taylor, Bradley T Hyman
Tau protein liquid-liquid phase separation can initiate tau aggregation.
EMBO J, Art. No. e98049 (2018)
Emma Teeling, Sonja Vernes, Liliana M Dávalos, David A Ray, M Thomas P Gilbert, Eugene Myers, Bat1K Consortium
Bat Biology, Genomes, and the Bat1K Project: To Generate Chromosome-Level Genomes for All Living Bat Species.
Annu Rev Anim Biosci, 6 23-46 (2018)
J P Joos, A R Saadatmand, C Schnabel, Ivana Viktorinová, Thomas Brand, M Kramer, S Nattel, D Dobrev, Pavel Tomancak, J Backs, P Kleinbongard, G Heusch, K Lorenz, E Koch, S Weber, A El-Armouche
Ectopic expression of S28A-mutated Histone H3 modulates longevity, stress resistance and cardiac function in Drosophila.
Sci Rep, 8(1) Art. No. 2940 (2018)
Lara Marrone, Ina Poser, Ian Casci, Julia Japtok, Peter Reinhardt, Antje Janosch, Cordula Andree, Hyun-Ok Kate Lee, Claudia Moebius, Ellen Koerner, Lydia Reinhardt, Maria Elena Cicardi, Karl Hackmann, Barbara Klink, Angelo Poletti, Simon Alberti, Marc Bickle, Andreas Hermann, Udai Pandey, Anthony Hyman, Jared Sterneckert
Isogenic FUS-eGFP iPSC Reporter Lines Enable Quantification of FUS Stress Granule Pathology that Is Rescued by Drugs Inducing Autophagy.
Stem Cell Reports, 10(2) 375-389 (2018)
Matthäus Mittasch, Peter Gross, Michael Nestler, Anatol W Fritsch, Christiane Iserman, Mrityunjoy Kar, Matthias Munder, Axel Voigt, Simon Alberti, Stephan W. Grill, Moritz Kreysing
How to apply FLUCS in single cells and living embryos
Protocol Exchange, Art. No. doi:10.1038/protex.2017.157 (2018)
Sergej Nowoshilow, Siegfried Schloissnig, Jifeng Fei, Andreas Dahl, Andy W C Pang, Martin Pippel, Sylke Winkler, Alex R Hastie, George Young, Juliana Roscito, Francisco Falcon, Dunja Knapp, Sean Powell, Alfredo Cruz, Han Cao, Bianca Habermann, Michael Hiller, Elly M. Tanaka, Eugene W Myers
The axolotl genome and the evolution of key tissue formation regulators.
Nature, 554(7690) 50-55 (2018)
Markus Grohme, Siegfried Schloissnig, Andrei Rozanski, Martin Pippel, George Robert Young, Sylke Winkler, Holger Brandl, Ian Henry, Andreas Dahl, Sean Powell, Michael Hiller, Eugene Myers, Jochen Rink
The genome of Schmidtea mediterranea and the evolution of core cellular mechanisms.
Nature, 554(7690) 56-61 (2018)
Jeffrey Woodruff, Anthony Hyman, Elvan Boke
Organization and Function of Non-dynamic Biomolecular Condensates.
Trends Biochem Sci, 43(2) 81-94 (2018)
Mette Handberg-Thorsager, Juliana Gutierrez-Mazariegos, Stefan T Arold, Eswar Kumar Nadendla, Paola Y Bertucci, Pierre Germain, Pavel Tomançak, Keely Pierzchalski, Jace W Jones, Ricard Albalat, Maureen A Kane, William Bourguet, Vincent Laudet, Detlev Arendt, Michael Schubert
The ancestral retinoic acid receptor was a low-affinity sensor triggering neuronal differentiation.
Sci Adv, 4(2) Art. No. eaao1261 (2018)
Marcel Naumann, Arun Pal, Anand Goswami, Xenia Lojewski, Julia Japtok, Anne Vehlow, Maximilian Naujock, René Günther, Mengmeng Jin, Nancy Stanslowsky, Peter Reinhardt, Jared Sterneckert, Marie Frickenhaus, Francisco Pan-Montojo, Erik Storkebaum, Ina Poser, Axel Freischmidt, Jochen H Weishaupt, Karlheinz Holzmann, Dirk Troost, Albert C Ludolph, Tobias M Boeckers, Stefan Liebau, Susanne Petri, Nils Cordes, Anthony Hyman, Florian Wegner, Stephan W. Grill, Joachim Weis, Alexander Storch, Andreas Hermann
Impaired DNA damage response signaling by FUS-NLS mutations leads to neurodegeneration and FUS aggregate formation.
Nat Commun, 9(1) Art. No. 335 (2018)
Matthias Kaiser, Florian Jug, Thomas Julou, Siddharth Deshpande, Thomas Pfohl, Olin Silander, Gene Myers, Erik van Nimwegen
Monitoring single-cell gene regulation under dynamically controllable conditions with integrated microfluidics and software.
Nat Commun, 9(1) Art. No. 212 (2018)
Stephen Enos, Martin Dressler, Beatriz Ferreira Gomes, Anthony Hyman, Jeffrey Woodruff
Phosphatase PP2A and microtubule-mediated pulling forces disassemble centrosomes during mitotic exit.
Biol Open, 7(1) Art. No. 029777 (2018)
Franziska Decker, David Oriola, Benjamin Dalton, Jan Brugues
Autocatalytic microtubule nucleation determines the size and mass of Xenopus laevis egg extract spindles.
Elife, 7 Art. No. e31149 (2018)
Titus Franzmann, Marcus Jahnel, Andrei I. Pozniakovsky, Julia Mahamid, Alex S Holehouse, Elisabeth Nüske, Doris Richter, Wolfgang Baumeister, Stephan W. Grill, Rohit V Pappu, Anthony A. Hyman, Simon Alberti
Phase separation of a yeast prion protein promotes cellular fitness.
Science, 359(6371) Art. No. eaao5654 (2018)
Sven Karol, Tobias Nett, Jeronimo Castrillon, Ivo F. Sbalzarini
A domain-specific language and editor for parallel particle methods
ACM Trans Math Softw, 44(3) Art. No. 34 (2018)
Ivo F. Sbalzarini, Urs F Greber
How Computational Models Enable Mechanistic Insights into Virus Infection.
Methods Mol Biol, 1836 609-631 (2018)
Christof Mast, Friederike Möller, Moritz Kreysing, Severin Schink, Benedikt Obermayer, Ulrich Gerland, Dieter Braun
Toward Living Nanomachines
In: Living machines : a handbook of research in biomimetic and biohybrid systems . (Eds.) Tony J Prescott,Oxford, UK,Oxford University Press (2018),380-389 Ch. 39

2017

Michael Weber, Nico Scherf, Alexander M Meyer, Daniela Panáková, Peter Kohl, Jan Huisken
Cell-accurate optical mapping across the entire developing heart.
Elife, 6 Art. No. e28307 (2017)
Martin Weigert, Uwe Schmidt, Tobias Boothe, Andreas Müller, Alexandr Dibrov, Akanksha Jain, Benjamin Wilhelm, Deborah Schmidt, Coleman Broaddus, Sian Culley, Mauricio Rocha-Martins, Fabián Segovia-Miranda, Caren Norden, Ricardo Henriques, Marino Zerial, Michele Solimena, Jochen Rink, Pavel Tomancak, Loic Royer, Florian Jug, Eugene W Myers
Content-Aware Image Restoration: Pushing the Limits of Fluorescence Microscopy
bioRxiv, Art. No. doi: 10.1101/236463 (2017)
Virag Sharma, Peter Schwede, Michael Hiller
CESAR 2.0 substantially improves speed and accuracy of comparative gene annotation.
Bioinformatics, 33(24) 3985-3987 (2017)
Oleksandr Ostrenko, Pietro Incardona, Rajesh Ramaswamy, Lutz Brusch, Ivo F. Sbalzarini
pSSAlib: The partial-propensity stochastic chemical network simulator.
PLoS Comput Biol, 13(12) Art. No. e1005865 (2017)
Sandra Richter, Ulrike Schulze, Pavel Tomançak, Andrew C. Oates
Small molecule screen in embryonic zebrafish using modular variations to target segmentation.
Nat Commun, 8(1) Art. No. 1901 (2017)
Vladimir Ulman, Martin Maška, Klas E. G. Magnusson, Olaf Ronneberger, Carsten Haubold, Nathalie Harder, Pavel Matula, Pavel Matula, David Svoboda, Miroslav Radojevic, Ihor Smal, Karl Rohr, Joakim Jaldén, Helen M. Blau, Oleh Dzyubachyk, Boudewijn Lelieveldt, Pengdong Xiao, Yuexiang Li, Siu-Yeung Cho, Alexandre C Dufour, Jean-Christophe Olivo-Marin, Constantino C Reyes-Aldasoro, Jose A Solis-Lemus, Robert Bensch, Thomas Brox, Johannes Stegmaier, Ralf Mikut, Steffen Wolf, Fred A Hamprecht, Tiago Esteves, Pedro Quelhas, Ömer Demirel, Lars Malmström, Florian Jug, Pavel Tomancak, Erik Meijering, Arrate Muñoz-Barrutia, Michal Kozubek, Carlos Ortiz-de-Solorzano
An objective comparison of cell-tracking algorithms.
Nat Methods, 14(12) 1141-1152 (2017)
Ivana Viktorinová, Ian Henry, Pavel Tomancak
Epithelial rotation is preceded by planar symmetry breaking of actomyosin and protects epithelial tissue from cell deformations.
PLoS Genet, 13(11) Art. No. 1007107 (2017)
Alessandro Muscoloni, Josephine Maria Thomas, Sara Ciucci, Ginestra Bianconi, Carlo Vittorio Cannistraci
Machine learning meets complex networks via coalescent embedding in the hyperbolic space.
Nat Commun, 8(1) 1615-1615 (2017)
Yusuke Toyoda, Cedric J Cattin, Martin P Stewart, Ina Poser, Mirko Theis, Teymuras V. Kurzchalia, Frank Buchholz, Anthony Hyman, Daniel J. Müller
Genome-scale single-cell mechanical phenotyping reveals disease-related genes involved in mitotic rounding.
Nat Commun, 8(1) Art. No. 1266 (2017)
Nikolai Hecker, Virag Sharma, Michael Hiller
Transition to an Aquatic Habitat Permitted the Repeated Loss of the Pleiotropic KLK8 Gene in Mammals.
Genome Biol Evol, 9(11) 3179-3188 (2017)
Markus Rempfler, Jan-Hendrik Lange, Florian Jug, Corinna Blasse, Eugene W Myers, Bjoern H. Menze, Bjoern Andres
Efficient Algorithms for Moral Lineage Tracing
In: 2017 IEEE International Conference on Computer Vision : ICCV 2017 : proceedings : 22-29 October 2017, Venice, Italy (2017), Piscataway, N.J., IEEE (2017), 4705-4714
Natalja Strelnikova, Nora Sauter, Manuel Guizar-Sicairos, Michael Göllner, Ana Diaz, Petrina Delivani, Mariola R. Chacón, Iva M Tolić, Vasily Zaburdaev, Thomas Pfohl
Live cell X-ray imaging of autophagic vacuoles formation and chromatin dynamics in fission yeast.
Sci Rep, 7(1) Art. No. 13775 (2017)
Natalie Dye, Marko Popović, Stephanie Spannl, Raphael Etournay, Dagmar Kainmüller, Suhrid Ghosh, Eugene W Myers, Frank Jülicher, Suzanne Eaton
Cell dynamics underlying oriented growth of the Drosophila wing imaginal disc.
Development, 144(23) 4406-4421 (2017)
Simone Pigolotti, Izaak Neri, Édgar Roldán, Frank Jülicher
Generic Properties of Stochastic Entropy Production.
Phys Rev Lett, 119(14) 140604-140604 (2017)
Sven Karol, Tobias Nett, Pietro Incardona, Nesrine Khouzami, Jeronimo Castrillon, Ivo F. Sbalzarini
A Language and Development Environment for Parallel Particle Methods
In: V. International Conference on Particle-based Methods : Fundamentals and Applications ; PARTICLES 2017 (2017)(Eds.) Peter Wriggers, Barcelona, International Center for Numerical Methods in Engineering (CIMNE) (2017), 564-575
Martin Weigert, Loic Royer, Florian Jug, Gene Myers
Isotropic reconstruction of 3D fluorescence microscopy images using convolutional neural networks
In: Medical Image Computing and Computer-Assisted Intervention -- MICCAI 2017 : 20th International Conference, Quebec City, QC, Canada, September 10-14, 2017, Proceedings, Part II (2017)(Eds.) Maxime Descoteaux (Lecture Notes in Computer Science ; 10434), Cham, Springer International Publishing (2017), 126-134
Cordula Reuther, Matthäus Mittasch, Sundar Naganathan, Stephan W. Grill, Stefan Diez
Highly-Efficient Guiding of Motile Microtubules on Non-Topographical Motor Patterns.
Nano Lett, 17(9) 5699-5705 (2017)
Kamran Rizzolo, Jennifer Huen, Ashwani Kumar, Sadhna Phanse, James Vlasblom, Yoshito Kakihara, Hussein A Zeineddine, Zoran Minic, Jamie Snider, Wen Wang, Carles Pons, Thiago V Seraphim, Edgar Boczek, Simon Alberti, Michael Costanzo, Chad L Myers, Igor Stagljar, Charles Boone, Mohan Babu, Walid A Houry
Features of the Chaperone Cellular Network Revealed through Systematic Interaction Mapping.
Cell Rep, 20(11) 2735-2748 (2017)
Amayra Hernández-Vega, Marcus Braun, Lara Scharrel, Marcus Jahnel, Susanne Wegmann, Bradley T Hyman, Simon Alberti, Stefan Diez, Anthony Hyman
Local Nucleation of Microtubule Bundles through Tubulin Concentration into a Condensed Tau Phase.
Cell Rep, 20(10) 2304-2312 (2017)
Vaibhav Narula, Antonio Giuliano Zippo, Alessandro Muscoloni, Gabriele Eliseo M. Biella, Carlo Vittorio Cannistraci
Can local-community-paradigm and epitopological learning enhance our understanding of how local brain connectivity is able to process, learn and memorize chronic pain?
Appl Netw Sci, 2(28) Art. No. doi: 10.1007/s41109-017-0048-x (2017)
Stephan W. Grill
The mechanics of positioning skin follicles.
Science, 357(6353) 750-751 (2017)
Corinna Blasse, Stephan Saalfeld, Raphael Etournay, Andreas Sagner, Suzanne Eaton, Eugene W Myers
PreMosa: extracting 2D surfaces from 3D microscopy mosaics.
Bioinformatics, 33(16) 2563-2569 (2017)
Meik Dörpinghaus, Édgar Roldán, Izaak Neri, Heinrich Meyr, Frank Jülicher
An information theoretic analysis of sequential decision-making
In: 2017 IEEE International Symposium on Information Theory (ISIT) : 25-30 June 2017 (2017)(Eds.) Gerhard Kramer, Piscataway, N.J., IEEE (2017), 3050-3054
Jun Hoe Lee, Michael Hiller
Genome-Wide Screens for Molecular Convergent Evolution in Mammals
In: Evolutionary Biology: Self/Nonself Evolution, Species and Complex Traits Evolution, Methods and Concepts . (Eds.) Pierre Pontarotti,Cham,Springer International Publishing (2017),297-312
Shambaditya Saha, Anthony Hyman
RNA gets in phase.
J Cell Biol, 216(8) 2235-2237 (2017)
Josefine Asmus, Christian L Müller, Ivo F. Sbalzarini
Lp-Adaptation: Simultaneous Design Centering and Robustness Estimation of Electronic and Biological Systems.
Sci Rep, 7(1) Art. No. 6660 (2017)
Tobias Boothe, Lennart Hilbert, Michael Heide, Lea Berninger, Wieland B. Huttner, Vasily Zaburdaev, Nadine Vastenhouw, Eugene W Myers, David N. Drechsel, Jochen Rink
A tunable refractive index matching medium for live imaging cells, tissues and model organisms.
Elife, 6 Art. No. e27240 (2017)
Adam Klosin, Anthony Hyman
Molecular biology: A liquid reservoir for silent chromatin.
Nature, 547(7662) 168-170 (2017)
Frank Jülicher, Suzanne Eaton
Emergence of tissue shape changes from collective cell behaviours.
Semin Cell Dev Biol, 67 103-112 (2017)
P Philippe Laissue, Rana A Alghamdi, Pavel Tomancak, Emmanuel G. Reynaud, Hari Shroff
Assessing phototoxicity in live fluorescence imaging.
Nat Methods, 14(7) 657-661 (2017)
Richard Grunzke, Florian Jug, Bernd Schuller, René Jäkel, Gene Myers, Wolfgang E Nagel
Seamless HPC Integration of Data-Intensive KNIME Workflows via UNICORE
In: Euro-Par 2016: Parallel Processing Workshops : Euro-Par 2016 International Workshops, Grenoble, France, August 24-26, 2016, Revised Selected Papers (2017)(Eds.) Frédéric Desprez (Lecture Notes in Computer Science ; 10104), Cham, Springer International Publishing (2017), 480-491
Christoph Metzendorf, Anja Zeigerer, Sarah Seifert, Richard Sparla, Bahar Najafi, François Canonne-Hergaux, Marino Zerial, Martina Muckenthaler
Acute loss of the hepatic endo-lysosomal system in vivo causes compensatory changes in iron homeostasis.
Sci Rep, 7(1) Art. No. 4023 (2017)
Virag Sharma, Michael Hiller
Increased alignment sensitivity improves the usage of genome alignments for comparative gene annotation.
Nucleic Acids Res, 45(14) 8369-8377 (2017)
Dmitrij Schlesinger, Florian Jug, Gene Myers, Carsten Rother, Dagmar Kainmueller
Crowd Sourcing Image Segmentation with iaSTAPLE
In: 14th. IEEE International Symposium on Biomedical Imaging: From Nano to Macro ; ISBI 2017 ; Proceedings (2017)(Eds.) Garry Egan, Piscataway, N.J., IEEE (2017), 401-405
Gerald Hempel, Goens Andres, Josefine Asmus, Jeronimo Castrillon, Ivo F. Sbalzarini
Robust Mapping of Process Networks to Many-Core Systems Using Bio-Inspired Design Centering
In: Proceedings of the 20th International Workshop on Software and Compilers for Embedded Systems - SCOPES '17 (2017)(Eds.) Sander Stuijk , New York, ACM (2017), 21-30
Martin Weigert, Eugene W Myers, Moritz Kreysing
Biobeam - Rigorous wave-optical simulations of light-sheet microscopy
arXiv, Art. No. arXiv:1706.02261 (2017)
Hernando Suarez, Björn Langer, Pradnya Ladde, Michael Hiller
chainCleaner improves genome alignment specificity and sensitivity.
Bioinformatics, 33(11) 1596-1603 (2017)
Jeffrey Woodruff, Beatriz Ferreira Gomes, Per Widlund, Julia Mahamid, Alf Honigmann, Anthony Hyman
The Centrosome Is a Selective Condensate that Nucleates Microtubules by Concentrating Tubulin.
Cell, 169(6) 1066-1077 (2017)
David G Drubin, Anthony Hyman
Stem cells: the new "model organism".
Mol Biol Cell, 28(11) 1409-1411 (2017)
Peter Gross, K Vijay Kumar, Stephan W. Grill
How Active Mechanics and Regulatory Biochemistry Combine to Form Patterns in Development.
Ann Rev Biophys, 46 337-356 (2017)
Avinash Patel, Liliana Malinovska, Shambaditya Saha, Jie Wang, Simon Alberti, Yamuna Krishnan, Anthony Hyman
ATP as a biological hydrotrope.
Science, 356(6339) 753-756 (2017)
Stefanie Redemann, Johannes Baumgart, Norbert Lindow, Michael Shelley, Ehssan Nazockdast, Andrea Kratz, Steffen Prohaska, Jan Brugués, Sebastian Fürthauer, Thomas Müller-Reichert
C. elegans chromosomes connect to centrosomes by anchoring into the spindle network.
Nat Commun, 8 Art. No. 15288 (2017)
Salman F Banani, Hyun-Ok Kate Lee, Anthony Hyman, Michael K Rosen
Biomolecular condensates: organizers of cellular biochemistry.
Nat Rev Mol Cell Biol, 18(5) 285-298 (2017)
Shai Joseph, Máté Pálfy, Lennart Hilbert, Mukesh Kumar, Jens Karschau, Vasily Zaburdaev, Andrej Shevchenko, Nadine Vastenhouw
Competition between histone and transcription factor binding regulates the onset of transcription in zebrafish embryos.
Elife, 6 Art. No. e23326 (2017)
Daniel Mateju, Titus Franzmann, Avinash Patel, Andrii Kopach, Edgar Boczek, Shovamayee Maharana, Hyun-Ok Kate Lee, Serena Carra, Anthony Hyman, Simon Alberti
An aberrant phase transition of stress granules triggered by misfolded protein and prevented by chaperone function.
EMBO J, 36(12) 1669-1687 (2017)
Jan Brugués
Cytoskeleton Dynamics: Mind the Gap!
Curr Biol, 27(7) 279-281 (2017)
David Zwicker, Rabea Seyboldt, Christoph A. Weber, Anthony A. Hyman, Frank Jülicher
Growth and division of active droplets provides a model for protocells
Nat Phys, 13(4) 408-413 (2017)
Yuanhao Gong, Ivo F. Sbalzarini
Curvature Filters Efficiently Reduce Certain Variational Energies.
IEEE Trans Image Process, 26(4) 1786-1798 (2017)
John J Reynolds, Louise S Bicknell, Paula Carroll, Martin R Higgs, Ranad Shaheen, Jennie E Murray, Dimitrios Papadopoulos, Andrea Leitch, Olga Murina, Žygimantė Tarnauskaitė, Sarah R Wessel, Anastasia Zlatanou, Audrey Vernet, Alex von Kriegsheim, Rachel M A Mottram, Clare V Logan, Hannah Bye, Yun Li, Alexander Brean, Sateesh Maddirevula, Rachel C Challis, Kassiani Skouloudaki, Agaadir Almoisheer, Hessa S Alsaif, Ariella Amar, Natalie J Prescott, Michael B Bober, Angela Duker, Eissa Faqeih, Mohammed Zain Seidahmed, Saeed Al Tala, Abdulrahman Alswaid, Saleem Ahmed, Jumana Yousuf Al-Aama, Janine Altmüller, Mohammed Al Balwi, Angela F Brady, Luciana Chessa, Helen Cox, Rita Fischetto, Raoul Heller, Bertram D Henderson, Emma Hobson, Peter Nürnberg, E Ferda Percin, Angela Peron, Luigina Spaccini, Alan J Quigley, Seema Thakur, Carol A Wise, Grace Yoon, Maha Alnemer, Pavel Tomancak, Gökhan Yigit, A Malcolm R Taylor, Martin A M Reijns, Michael A Simpson, David Cortez, Fowzan Sami Alkuraya, Christopher G Mathew, Andrew P Jackson, Grant S Stewart
Mutations in DONSON disrupt replication fork stability and cause microcephalic dwarfism.
Nat Genet, 49(4) 537-549 (2017)
Rory M Power, Jan Huisken
A guide to light-sheet fluorescence microscopy for multiscale imaging.
Nat Methods, 14(4) 360-373 (2017)
Bipul R Acharya, Selwin K Wu, Zi Zhao Lieu, Robert G. Parton, Stephan W. Grill, Alexander D Bershadsky, Guillermo A Gomez, Alpha S Yap
Mammalian Diaphanous 1 Mediates a Pathway for E-cadherin to Stabilize Epithelial Barriers through Junctional Contractility.
Cell Rep, 18(12) 2854-2867 (2017)
Kirstin Meyer, Oleksandr Ostrenko, George Bourantas, Hernán Morales-Navarrete, Natalie Porat-Shliom, Fabián Segovia-Miranda, Hidenori Nonaka, Ali Ghaemi, Jean-Marc Verbavatz, Lutz Brusch, Ivo F. Sbalzarini, Yannis Kalaidzidis, Roberto Weigert, Marino Zerial
A Predictive 3D Multi-Scale Model of Biliary Fluid Dynamics in the Liver Lobule.
Cell Syst, 4(3) 277-290 (2017)
Sara Ciucci, Yan Ge, Claudio Durán, Alessandra Palladini, Víctor Jiménez-Jiménez, Luisa María Martínez-Sánchez, Yuting Wang, Susanne Sales, Andrej Shevchenko, Steven W Poser, Maik Herbig, Oliver Otto, Andreas Androutsellis-Theotokis, Jochen Guck, Mathias J. Gerl, Carlo Vittorio Cannistraci
Enlightening discriminative network functional modules behind Principal Component Analysis separation in differential-omic science studies.
Sci Rep, 7 Art. No. 43946 (2017)
Sara N. Nagelberg, Lauren D. Zarzar, Natalie Nicolas, Kaushikaram Subramanian, Julia A Kalow, Vishnu Sresht, Daniel Blankschtein, George Barbastathis, Moritz Kreysing, Timothy M Swager, Mathias Kolle
Reconfigurable and responsive droplet-based compound micro-lenses.
Nat Commun, 8 Art. No. 14673 (2017)
Matthias Merkel, Raphael Etournay, Marko Popović, Guillaume Salbreux, Suzanne Eaton, Frank Jülicher
Triangles bridge the scales: Quantifying cellular contributions to tissue deformation.
Phys Rev E, 95(3) Art. No. 032401 (2017)
Ana Lisica, Stephan W. Grill
Optical tweezers studies of transcription by eukaryotic RNA polymerases.
Biomol Concepts, 8(1) 1-11 (2017)
Marko Popović, Amitabha Nandi, Matthias Merkel, Raphael Etournay, Suzanne Eaton, Frank Jülicher, Guillaume Salbreux
Active dynamics of tissue shear flow
New J Phys, 19(3) Art. No. 033006 (2017)
Izaak Neri, Édgar Roldán, Frank Jülicher
Statistics of Infima and Stopping Times of Entropy Production and Applications to Active Molecular Processes
Physical Review X, 7(1) Art. No. 011019 (2017)
Tom Stückemann, James Cleland, Steffen Werner, Hanh Thi-Kim Vu, Robert Bayersdorf, Shang-Yun Liu, Benjamin Friedrich, Frank Jülicher, Jochen Rink
Antagonistic Self-Organizing Patterning Systems Control Maintenance and Regeneration of the Anteroposterior Axis in Planarians.
Dev Cell, 40(3) 248-263 (2017)
Masatoshi Nishikawa, Sundar Naganathan, Frank Jülicher, Stephan W. Grill
Controlling contractile instabilities in the actomyosin cortex.
Elife, 6 Art. No. e19595 (2017)
Marie Skogs, Charlotte Stadler, Rutger Schutten, Martin Hjelmare, Christian Gnann, Lars Björk, Ina Poser, Anthony Hyman, Mathias Uhlén, Emma Lundberg
Antibody Validation in Bioimaging Applications Based on Endogenous Expression of Tagged Proteins.
J Proteome Res, 16(1) 147-155 (2017)
Katrin Sameith, Juliana Roscito, Michael Hiller
Iterative error correction of long sequencing reads maximizes accuracy and improves contig assembly.
Brief Bioinform, 18(1) 1-8 (2017)
Anja Zeigerer, Anne Wuttke, Giovanni Marsico, Sarah Seifert, Yannis Kalaidzidis, Marino Zerial
Functional properties of hepatocytes in vitro are correlated with cell polarity maintenance.
Exp Cell Res, 350(1) 242-252 (2017)
Robert Bensch, Nico Scherf, Jan Huisken, Thomas Brox, Olaf Ronneberger
Spatiotemporal Deformable Prototypes for Motion Anomaly Detection
Int J Comput Vis, 122(3) 502-523 (2017)

2016

Marta Florio, Takashi Namba, Svante Pääbo, Michael Hiller, Wieland B. Huttner
A single splice site mutation in human-specific ARHGAP11B causes basal progenitor amplification
Sci Adv, 2(12) Art. No. e1601941 (2016)
Ilaria Visco, Carsten Hoege, Anthony Hyman, Petra Schwille
In vitro Reconstitution of a Membrane Switch Mechanism for the Polarity Protein LGL.
J Mol Biol, 428(24 Pt A) 4828-4842 (2016)
Loic Royer, William Lemon, Raghav K Chhetri, Yinan Wan, Michael Coleman, Eugene W Myers, Patrick Keller
Adaptive light-sheet microscopy for long-term, high-resolution imaging in living organisms.
Nat Biotechnol, 34(12) 1267-1278 (2016)
Veronika Fitz, Jaeoh Shin, Christoph Ehrlich, Lucas Farnung, Patrick Cramer, Vasily Zaburdaev, Stephan W. Grill
Nucleosomal arrangement affects single-molecule transcription dynamics.
Proc Natl Acad Sci U.S.A., 113(45) 12733-12738 (2016)
Jacques Pécréaux, Stefanie Redemann, Zahraa Alayan, Benjamin Mercat, Sylvain Pastezeur, Carlos Garzon-Coral, Anthony Hyman, Jonathon Howard
The Mitotic Spindle in the One-Cell C. elegans Embryo Is Positioned with High Precision and Stability.
Biophys J, 111(8) 1773-1784 (2016)
Oliver Wueseke, David Zwicker, Anne Schwager, Yao Liang Wong, Karen Oegema, Frank Jülicher, Anthony Hyman, Jeffrey Woodruff
Polo-like kinase phosphorylation determines Caenorhabditis elegans centrosome size and density by biasing SPD-5 toward an assembly-competent conformation.
Biol Open, 5(10) 1431-1440 (2016)
Anne-Cecile Reymann, Fabio Staniscia, Anna Erzberger, Guillaume Salbreux, Stephan W. Grill
Cortical flow aligns actin filaments to form a furrow.
Elife, 5 Art. No. e17807 (2016)
Simon Alberti, Anthony Hyman
Are aberrant phase transitions a driver of cellular aging?
Bioessays, 38(10) 959-968 (2016)
Veronica Astro, Diletta Tonoli, Sara Chiaretti, Sabrina Badanai, Kristyna Sala, Marino Zerial, Ivan de Curtis
Liprin-α1 and ERC1 control cell edge dynamics by promoting focal adhesion turnover.
Sci Rep, 6 Art. No. 33653 (2016)
Kaiser Matthias, Florian Jug, Olin Silander, Siddharth Deshpande, Thomas Pfohl, Thomas Julou, Gene Myers, Erik van Nimwegen
Tracking single-cell gene regulation in dynamically controlled environments using an integrated microfluidic and computational setup
bioRxiv, Art. No. 076224 (2016)
Shambaditya Saha, Christoph A. Weber, Marco Nousch, Omar Adame-Arana, Carsten Hoege, Marco Y Hein, Erin Osborne-Nishimura, Julia Mahamid, Marcus Jahnel, Louise Jawerth, Andrei Pozniakovski, Christian R. Eckmann, Frank Jülicher, Anthony Hyman
Polar Positioning of Phase-Separated Liquid Compartments in Cells Regulated by an mRNA Competition Mechanism.
Cell, 166(6) 1572-1584 (2016)
Jochen H Weishaupt, Tony Hyman, Ivan Dikic
Common Molecular Pathways in Amyotrophic Lateral Sclerosis and Frontotemporal Dementia.
Trends Mol Med, 22(9) 769-783 (2016)
Benjamin Schmid, Wiebke Jahr, Michael Weber, Jan Huisken
Software Framework for Controlling Unsupervised Scientific Instruments.
PLoS ONE, 11(8) Art. No. e0161671 (2016)
David Murray, Marcus Jahnel, Janelle Lauer, Mario Avellaneda, Nicolas Brouilly, Alice Cezanne, Hernán Morales-Navarrete, Enrico Perini, Charles Ferguson, Andrei N Lupas, Yannis Kalaidzidis, Robert G. Parton, Stephan W. Grill, Marino Zerial
An endosomal tether undergoes an entropic collapse to bring vesicles together.
Nature, 537(7618) 107-111 (2016)
Elisabeth Fischer-Friedrich, Yusuke Toyoda, Cedric J Cattin, Daniel J. Müller, Anthony Hyman, Frank Jülicher
Rheology of the Active Cell Cortex in Mitosis.
Biophys J, 111(3) 589-600 (2016)
Xavier Prudent, Genis Parra, Peter Schwede, Juliana Roscito, Michael Hiller
Controlling for Phylogenetic Relatedness and Evolutionary Rates Improves the Discovery of Associations Between Species' Phenotypic and Genomic Differences.
Mol Biol Evol, 33(8) 2135-2150 (2016)
Stephan Daetwyler, Jan Huisken
Fast Fluorescence Microscopy with Light Sheets.
Biol Bull, 231(1) 14-25 (2016)
Elvan Boke, Martine Ruer, Martin Wühr, Margaret Coughlin, Regis P. Lemaitre, Steven Gygi, Simon Alberti, David N. Drechsel, Anthony Hyman, Timothy J. Mitchison
Amyloid-like Self-Assembly of a Cellular Compartment.
Cell, 166(3) 637-650 (2016)
Sara Cuylen, Claudia Blaukopf, Antonio Z Politi, Thomas Müller-Reichert, Beate Neumann, Ina Poser, Jan Ellenberg, Anthony Hyman, Daniel W Gerlich
Ki-67 acts as a biological surfactant to disperse mitotic chromosomes.
Nature, 535(7611) 308-312 (2016)
Florian Jug, Evgeny Levinkov, Corinna Blasse, Eugene W Myers, Bjoern Andres
Moral Lineage Tracing
In: Proceedings 29th IEEE Conference on Computer Vision and Pattern Recognition (CVPR 2016) (2016), Piscataway, N.J., IEEE (2016), 5926-5935
Virag Sharma, Anas Elghafari, Michael Hiller
Coding exon-structure aware realigner (CESAR) utilizes genome alignments for accurate comparative gene annotation.
Nucleic Acids Res, 44(11) Art. No. e103 (2016)
Hernán Morales-Navarrete, Hidenori Nonaka, Fabián Segovia-Miranda, Marino Zerial, Yannis Kalaidzidis
Automatic recognition and characterization of different non-parenchymal cells in liver tissue.
In: 2016 IEEE 13th International Symposium on Biomedical Imaging (ISBI) (2016), Piscataway, N.J., IEEE (2016), 536-540
Édgar Roldán, Ana Lisica, Daniel Sánchez-Taltavull, Stephan W. Grill
Stochastic resetting in backtrack recovery by RNA polymerases.
Phys Rev E, 93(6-1) Art. No. 062411 (2016)
Raphael Etournay, Matthias Merkel, Marko Popović, Holger Brandl, Natalie Dye, Benoit Aigouy, Guillaume Salbreux, Suzanne Eaton, Frank Jülicher
TissueMiner: a multiscale analysis toolkit to quantify how cellular processes create tissue dynamics.
Elife, 5 Art. No. e14334 (2016)
Diego Guerrera, Jimit Shah, Ekaterina Vasileva, Sophie Sluysmans, Isabelle Méan, Lionel Jond, Ina Poser, Matthias Mann, Anthony Hyman, Sandra Citi
PLEKHA7 Recruits PDZD11 to Adherens Junctions to Stabilize Nectins.
J Biol Chem, 291(21) 11016-11029 (2016)
Pavel Tomancak
Universal Rules of Regulation
Cell, 165(5) 1035-1036 (2016)
Mathias Kolle, Joseph D. Sandt, Sara N. Nagelberg, Lauren D. Zarzar, Moritz Kreysing, Peter Vukusic
Biological inspiration in optics and photonics: harnessing nature's light manipulation strategies for multifunctional optical materials (Invited talk)
In: Conference on Biophysics, Biology, and Biophotonics - The Crossroads (2016) Proceedings of SPIE; 9719, Bellingham, USA, SPIE (2016), 971903-971903
Elke Gabriel, Arpit Wason, Anand Ramani, Li Ming Gooi, Patrick Keller, Andrei I. Pozniakovsky, Ina Poser, Florian Noack, Narasimha Swamy Telugu, Federico Calegari, Tomo Šarić, Juergen Hescheler, Anthony Hyman, Marco Gottardo, Giuliano Callaini, Fowzan Sami Alkuraya, Jay Gopalakrishnan
CPAP promotes timely cilium disassembly to maintain neural progenitor pool.
EMBO J, 35(8) 803-819 (2016)
Jaroslav Icha, Christopher Schmied, Jaydeep Sidhaye, Pavel Tomancák, Stephan Preibisch, Caren Norden
Using Light Sheet Fluorescence Microscopy to Image Zebrafish Eye Development
J Vis Exp, (110) Art. No. e53966 (2016)
Christopher Schmied, Peter Steinbach, Tobias Pietzsch, Stephan Preibisch, Pavel Tomancak
An automated workflow for parallel processing of large multiview SPIM recordings.
Bioinformatics, 32(7) 1112-1114 (2016)
Konstantin Thierbach, Gopi Shah, Ingmar Glauche, Jan Huisken, Ingo Roeder, Nico Scherf
Biology-inspired visualization of morphogenetic motion in the zebrafish endoderm
In: 2016 IEEE 13th International Symposium on Biomedical Imaging (ISBI) (2016), Piscataway, N.J., IEEE (2016), 925-929
Hao Yin, Roman L Bogorad, Carmen Barnes, Stephen Walsh, Iris Zhuang, Hidenori Nonaka, Vera M Ruda, Satya Kuchimanchi, Lubomir Nechev, Akin Akinc, Wen Xue, Marino Zerial, Robert Langer, Daniel G Anderson, Victor Koteliansky
RNAi-nanoparticulate manipulation of gene expression as a new functional genomics tool in the liver.
J Hepatol, 64(4) 899-907 (2016)
Arnab Saha, Masatoshi Nishikawa, Martin Behrndt, Carl-Philipp Heisenberg, Frank Jülicher, Stephan W. Grill
Determining Physical Properties of the Cell Cortex.
Biophys J, 110(6) 1421-1429 (2016)
Ana Lisica, Christoph Engel, Marcus Jahnel, Édgar Roldán, Eric A. Galburt, Patrick Cramer, Stephan W. Grill
Mechanisms of backtrack recovery by RNA polymerases I and II.
Proc Natl Acad Sci U.S.A., 113(11) 2946-2951 (2016)
Kenneth Börner, Dhawal Jain, Paula Vazquez-Pianzola, Sandra Vengadasalam, Natascha Steffen, Dmitry V Fyodorov, Pavel Tomancak, Alexander Konev, Beat Suter, Peter B Becker
A role for tuned levels of nucleosome remodeler subunit ACF1 during Drosophila oogenesis.
Dev Biol, 411(2) 217-230 (2016)
Susanne Hasse, Anthony Hyman, Mihail Sarov
TransgeneOmics - A transgenic platform for protein localization based function exploration.
Methods, 96 69-74 (2016)
Julia Mahamid, Stefan Pfeffer, Miroslava Schaffer, Elizabeth Villa, Radostin Danev, Luis Kuhn Cuellar, Friedrich Förster, Anthony Hyman, Jürgen M Plitzko, Wolfgang Baumeister
Visualizing the molecular sociology at the HeLa cell nuclear periphery.
Science, 351(6276) 969-972 (2016)
Roberto Villaseñor, Yannis Kalaidzidis, Marino Zerial
Signal processing by the endosomal system.
Curr Opin Cell Biol, 39 53-60 (2016)
Jan Arnold, Julia Mahamid, Vladan Lucic, Alex de Marco, Jose-Jesus Fernandez, Tim Laugks, Tobias Mayer, Anthony Hyman, Wolfgang Baumeister, Jürgen M Plitzko
Site-Specific Cryo-focused Ion Beam Sample Preparation Guided by 3D Correlative Microscopy.
Biophys J, 110(4) 860-869 (2016)
Mihail Sarov, Christiane Barz, Helena Jambor, Marco Y Hein, Christopher Schmied, Dana Suchold, Bettina Stender, Stephan Janosch, Vinay Vikas Kj, R T Krishnan, Aishwarya Krishnamoorthy, Irene R S Ferreira, Radoslaw K Ejsmont, Katja Finkl, Susanne Hasse, Philipp Kämpfer, Nicole Plewka, Elisabeth Vinis, Siegfried Schloissnig, Elisabeth Knust, Volker Hartenstein, Matthias Mann, Mani Ramaswami, K VijayRaghavan, Pavel Tomancak, Frank Schnorrer
A genome-wide resource for the analysis of protein localisation in Drosophila.
Elife, 5 Art. No. e12068 (2016)
Eric Lewitus, Iva Kelava, Alex T. Kalinka, Pavel Tomancak, Wieland B. Huttner
Comment on "Cortical folding scales universally with surface area and thickness, not number of neurons".
Science, 351(6275) 825-825 (2016)
L Carine Stapel, Benoit Lombardot, Coleman Broaddus, Dagmar Kainmueller, Florian Jug, Eugene W Myers, Nadine Vastenhouw
Automated detection and quantification of single RNAs at cellular resolution in zebrafish embryos.
Development, 143(3) 540-546 (2016)
Sundar Naganathan, Teije C Middelkoop, Sebastian Fürthauer, Stephan W. Grill
Actomyosin-driven left-right asymmetry: from molecular torques to chiral self organization.
Curr Opin Cell Biol, 38 24-30 (2016)
Ivo F. Sbalzarini
Seeing Is Believing: Quantifying Is Convincing: Computational Image Analysis in Biology
In: Focus on Bio-Image Informatics. (Eds.) Winnok, H. De Vos (Advances in Anatomy, Embryology and Cell Biology ; 219).,Cham,Springer International Publishing (2016),1-39 Ch. 1
Yuanhao Gong, Ivo F. Sbalzarini
A Natural-Scene Gradient Distribution Prior and its Application in Light-Microscopy Image Processing
IEEE J Sel Top Signal Process, 10(1) 99-114 (2016)
Yaser Afshar, Ivo F. Sbalzarini
A Parallel Distributed-Memory Particle Method Enables Acquisition-Rate Segmentation of Large Fluorescence Microscopy Images
PLoS ONE, 11(4) Art. No. e0152528 (2016)
George Bourantas, Bevan Cheeseman, Rajesh Ramaswamy, Ivo F. Sbalzarini
Using DC PSE operator discretization in Eulerian meshless collocation methods improves their robustness in complex geometries
Computers & Fluids, 136 285-300 (2016)
Xun Xiao, Veikko Geyer, Hugo Bowne-Anderson, Jonathon Howard, Ivo F. Sbalzarini
Automatic optimal filament segmentation with sub-pixel accuracy using generalized linear models and B-spline level-sets
Med Image Anal, 32 157-172 (2016)
Wiebke Jahr, Benjamin Schmid, Michael Weber, Jan Huisken
eduSPIM: Light Sheet Microscopy in the Museum.
PLoS ONE, 11(8) Art. No. e0161402 (2016)
Christopher Schmied, Pavel Tomancak
Sample Preparation and Mounting of Drosophila Embryos for Multiview Light Sheet Microscopy.
Methods Mol Biol, 1478 189-202 (2016)
Helena Jambor, Pavel Mejstrik, Pavel Tomancak
Rapid Ovary Mass-Isolation (ROMi) to Obtain Large Quantities of Drosophila Egg Chambers for Fluorescent In Situ Hybridization.
Methods Mol Biol, 1478 253-262 (2016)
Ronald D Vale, Anthony Hyman
Priority of discovery in the life sciences.
Elife, 5 Art. No. e16931 (2016)
Mark Leaver, Simone Kienle, Maria L Begasse, Ralf J Sommer, Anthony Hyman
A locus in Pristionchus pacificus that is responsible for the ability to give rise to fertile offspring at higher temperatures.
Biol Open, 5(8) 1111-1117 (2016)
Matthias Munder, Daniel Midtvedt, Titus Franzmann, Elisabeth Nüske, Oliver Otto, Maik Herbig, Elke Ulbricht, Paul Müller, Anna Taubenberger, Shovamayee Maharana, Liliana Malinovska, Doris Richter, Jochen Guck, Vasily Zaburdaev, Simon Alberti
A pH-driven transition of the cytoplasm from a fluid- to a solid-like state promotes entry into dormancy.
Elife, 5 Art. No. e09347 (2016)
Susanne Sales, Juergen Graessler, Sara Ciucci, Rania Al-Atrib, Terhi Vihervaara, Kai Schuhmann, Dimple Kauhanen, Marko Sysi-Aho, Stefan Bornstein, Marc Bickle, Carlo Vittorio Cannistraci, Kim Ekroos, Andrej Shevchenko
Gender, Contraceptives and Individual Metabolic Predisposition Shape a Healthy Plasma Lipidome.
Sci Rep, 6 Art. No. 27710 (2016)
Hendrik Sollich, Ulrich von Zadow, Tobias Pietzsch, Pavel Tomancak, Raimund Dachselt
Exploring Time-dependent Scientific Data Using Spatially Aware Mobiles and Large Displays
In: Proceedings of the 2016 ACM on Interactive Surfaces and Spaces (2016), New York, ACM (2016), 349-354
Alexis Webb, Iván M Lengyel, David J. Jörg, Guillaume Valentin, Frank Jülicher, Luis G. Morelli, Andrew C. Oates
Persistence, period and precision of autonomous cellular oscillators from the zebrafish segmentation clock.
Elife, 5 Art. No. e08438 (2016)
Gheorghe Cojoc, Ana-Maria Florescu, Alexander Krull, Anna Klemm, Nenad Pavin, Frank Jülicher, Iva M Tolić
Paired arrangement of kinetochores together with microtubule pivoting and dynamics drive kinetochore capture in meiosis I.
Sci Rep, 6 Art. No. 25736 (2016)
Artur Yakimovich, Yauhen Yakimovich, Michael Schmid, Jason Mercer, Ivo F. Sbalzarini, Urs F Greber
Infectio: a Generic Framework for Computational Simulation of Virus Transmission between Cells.
mSphere, 1(1) Art. No. e00078-15 (2016)
Franck Raynaud, Mark E. Ambühl, Chiara Gabella, Alicia Bornert, Ivo F. Sbalzarini, J-J Meister, A B Verkhovsky
Minimal model for spontaneous cell polarization and edge activity in oscillating, rotating and migrating cells
Nat Phys, 12 367-373 (2016)
Johannes Girstmair, Anne Zakrzewski, François Lapraz, Mette Handberg-Thorsager, Pavel Tomancak, Peter Gabriel Pitrone, Fraser Simpson, Maximilian J Telford
Light-sheet microscopy for everyone? Experience of building an OpenSPIM to study flatworm development.
BMC Dev Biol, 16(1) Art. No. 22 (2016)
Michael N Economo, Nathan G Clack, Luke D Lavis, Charles R Gerfen, Karel Svoboda, Eugene W Myers, Jayaram Chandrashekar
A platform for brain-wide imaging and reconstruction of individual neurons.
Elife, 5 Art. No. e10566 (2016)
Jon M Carthy, Martin Stöter, Claudia Bellomo, Michael Vanlandewijck, Angelos Heldin, Anita Morén, Dimitris Kardassis, Timothy C Gahman, Andrew K Shiau, Marc Bickle, Marino Zerial, Carl-Henrik Heldin, Aristidis Moustakas
Chemical regulators of epithelial plasticity reveal a nuclear receptor pathway controlling myofibroblast differentiation.
Sci Rep, 6 Art. No. 29868 (2016)
Xiangdong Zheng, Anand Ramani, Komal Soni, Marco Gottardo, Shuangping Zheng, Li Ming Gooi, Wenjing Li, Shan Feng, Aruljothi Mariappan, Arpit Wason, Per Widlund, Andrei I. Pozniakovsky, Ina Poser, Haiteng Deng, Guangshuo Ou, Maria Riparbelli, Callaini Giuliano, Anthony Hyman, Michael Sattler, Jay Gopalakrishnan, Haitao Li
Molecular basis for CPAP-tubulin interaction in controlling centriolar and ciliary length.
Nat Commun, 7 Art. No. 11874 (2016)

2015

Michael Weber, Jan Huisken
In vivo imaging of cardiac development and function in zebrafish using light sheet microscopy.
Swiss Med Wkly, 145 Art. No. w14227 (2015)
Édgar Roldán, Izaak Neri, Meik Dörpinghaus, Heinrich Meyr, Frank Jülicher
Decision Making in the Arrow of Time.
Phys Rev Lett, 115(25) Art. No. 250602 (2015)
Hernán Morales-Navarrete, Fabián Segovia-Miranda, Piotr Klukowski, Kirstin Meyer, Hidenori Nonaka, Giovanni Marsico, Mikhail Chernykh, Alexander Kalaidzidis, Marino Zerial, Yannis Kalaidzidis
A versatile pipeline for the multi-scale digital reconstruction and quantitative analysis of 3D tissue architecture.
Elife, 4 Art. No. e11214 (2015)
Kathrin Reichwald, Andreas Petzold, Philipp Koch, Bryan R Downie, Nils Hartmann, Stefan Pietsch, Mario Baumgart, Domitille Chalopin, Marius Felder, Martin Bens, Arne Sahm, Karol Szafranski, Stefan Taudien, Marco Groth, Ivan Arisi, Anja Weise, Samarth S Bhatt, Virag Sharma, Johann M Kraus, Florian Schmid, Steffen Priebe, Thomas Liehr, Matthias Görlach, Manuel E Than, Michael Hiller, Hans A Kestler, Jean-Nicolas Volff, Manfred Schartl, Alessandro Cellerino, Christoph Englert, Matthias Platzer
Insights into Sex Chromosome Evolution and Aging from the Genome of a Short-Lived Fish.
Cell, 163(6) 1527-1538 (2015)
Barbara Sorce, Carlos Escobedo, Yusuke Toyoda, Martin P Stewart, Cedric J Cattin, Richard Newton, Indranil Banerjee, Alexander Stettler, Botond Roska, Suzanne Eaton, Anthony Hyman, Andreas Hierlemann, Daniel J. Müller
Mitotic cells contract actomyosin cortex and generate pressure to round against or escape epithelial confinement.
Nat Commun, 6 Art. No. 8872 (2015)
David Richmond, Dagmar Kainmueller, Ben Glocker, Carsten Rother, Gene Myers
Uncertainty-Driven Forest Predictors for Vertebra Localization and Segmentation
In: Medical Image Computing and Computer-Assisted Intervention -- MICCAI 2015 : 18th International Conference, Munich, Germany, October 5-9, 2015, Proceedings, Part I (2015) Lecture Notes in Computer Science ; 9349, Cham, Springer International Publishing (2015), 653-660
Yen Ting Lin, Daniela Frömberg, Wenwen Huang, Petrina Delivani, Mariola R. Chacón, Iva M Tolić, Frank Jülicher, Vasily Zaburdaev
Pulled Polymer Loops as a Model for the Alignment of Meiotic Chromosomes.
Phys Rev Lett, 115(20) Art. No. 208102 (2015)
Claire Lye, Guy Blanchard, Huw Naylor, Leila Muresan, Jan Huisken, Richard J Adams, Benedicte Sanson
Mechanical Coupling between Endoderm Invagination and Axis Extension in Drosophila.
PLoS Biol, 13(11) Art. No. e1002292 (2015)
Dimitrios Papadopoulos, Aleksandar J Krmpot, Stanko N Nikolić, Robert Krautz, Lars Terenius, Pavel Tomancak, Rudolf Rigler, Walter J Gehring, Vladana Vukojević
Probing the kinetic landscape of Hox transcription factor-DNA binding in live cells by massively parallel Fluorescence Correlation Spectroscopy.
Mech Dev, 138(2) 218-225 (2015)
Julia Mahamid, Ruud Schampers, Hans Persoon, Anthony Hyman, Wolfgang Baumeister, Jürgen M Plitzko
A focused ion beam milling and lift-out approach for site-specific preparation of frozen-hydrated lamellas from multicellular organisms.
J Struct Biol, 192(2) 262-269 (2015)
Marco Y Hein, Nina C Hubner, Ina Poser, Jürgen Cox, Nagarjuna Nagaraj, Yusuke Toyoda, Igor A Gak, Ina Weisswange, Jorg Mansfeld, Frank Buchholz, Anthony Hyman, Matthias Mann
A Human Interactome in Three Quantitative Dimensions Organized by Stoichiometries and Abundances.
Cell, 163(3) 712-723 (2015)
Benjamin Schmid, Jan Huisken
Real-time multi-view deconvolution.
Bioinformatics, 31(20) 3398-3400 (2015)
Inna Kalaidzidis, Marta Miaczynska, Marta Brewińska-Olchowik, Anna Hupalowska, Charles Ferguson, Robert G. Parton, Yannis Kalaidzidis, Marino Zerial
APPL endosomes are not obligatory endocytic intermediates but act as stable cargo-sorting compartments.
J Cell Biol, 211(1) 123-144 (2015)
Yinan Wan, Fuhui Long, Lei Qu, Hang Xiao, Michael Hawrylycz, Eugene W Myers, Hanchuan Peng
BlastNeuron for Automated Comparison, Retrieval and Clustering of 3D Neuron Morphologies.
Neuroinformatics, 13(4) 487-499 (2015)
Jerome Gilleron, Prasath Paramasivam, Anja Zeigerer, William Querbes, Giovanni Marsico, Cordula Andree, Sarah Seifert, Pablo Amaya, Martin Stöter, Victor Koteliansky, Herbert Waldmann, Kevin Fitzgerald, Yannis Kalaidzidis, Akin Akinc, Martin A Maier, Muthiah Manoharan, Marc Bickle, Marino Zerial
Identification of siRNA delivery enhancers by a chemical library screen.
Nucleic Acids Res, 43(16) 7984-8001 (2015)
Wiebke Jahr, Benjamin Schmid, Christopher Schmied, Florian Fahrbach, Jan Huisken
Hyperspectral light sheet microscopy.
Nat Commun, 6 Art. No. 7990 (2015)
David J. Jörg, Luis G. Morelli, Daniele Soroldoni, Andrew C. Oates, Frank Jülicher
Continuum theory of gene expression waves during vertebrate segmentation
New J Phys, 17 Art. No. 093042 (2015)
Avinash Patel, Hyun-Ok Kate Lee, Louise Jawerth, Shovamayee Maharana, Marcus Jahnel, Marco Y Hein, Stoyno Stoynov, Julia Mahamid, Shambaditya Saha, Titus Franzmann, Andrei Pozniakovski, Ina Poser, Nicola Maghelli, Loic Royer, Martin Weigert, Eugene W Myers, Stephan W. Grill, David N. Drechsel, Anthony Hyman, Simon Alberti
A Liquid-to-Solid Phase Transition of the ALS Protein FUS Accelerated by Disease Mutation.
Cell, 162(5) 1066-1077 (2015)
Sven Karol, Pietro Incardona, Yaser Afshar, Ivo F. Sbalzarini, Jeronimo Castrillon
Towards a Next-Generation Parallel Particle-Mesh Language.
In: Proceedings of the 3rd Workshop on Domain-Specific Language Design and Implementation DSLDI’15 at 29th European Conference on Object-Oriented Programming (ECOOP 2015), Prague, Czech Republic, July 7, 2015 (2015)(Eds.) Sebastian Erdweg, Tijs van der Storm, Cornell University Library, arXiv (2015)
Nico Scherf, Jan Huisken
The smart and gentle microscope.
Nat Biotechnol, 33(8) 815-818 (2015)
David Zwicker, Anthony Hyman, Frank Jülicher
Suppression of Ostwald ripening in active emulsions.
Phys Rev E, 92(1) Art. No. 012317 (2015)
Loic Royer, Martin Weigert, Ulrik Günther, Nicola Maghelli, Florian Jug, Ivo F. Sbalzarini, Eugene W Myers
ClearVolume: open-source live 3D visualization for light-sheet microscopy.
Nat Methods, 12(6) 480-481 (2015)
Tobias Pietzsch, Stephan Saalfeld, Stephan Preibisch, Pavel Tomancak
BigDataViewer: visualization and processing for large image data sets.
Nat Methods, 12(6) 481-483 (2015)
Carlas S Smith, Stephan Preibisch, Aviva Joseph, Sara Abrahamsson, Bernd Rieger, Eugene Myers, Robert H. Singer, David Grunwald
Nuclear accessibility of β-actin mRNA is measured by 3D single-molecule real-time tracking.
J Cell Biol, 209(4) 609-619 (2015)
Jeffrey Woodruff, Oliver Wueseke, Valeria Viscardi, Julia Mahamid, Stacy D Ochoa, Jakob Bunkenborg, Per Widlund, Andrei I. Pozniakovsky, Esther Zanin, Shirin Bahmanyar, Andrea Zinke, Sun Hae Hong, Markus Decker, Wolfgang Baumeister, Jens S Andersen, Karen Oegema, Anthony Hyman
Centrosomes. Regulated assembly of a supramolecular centrosome scaffold in vitro.
Science, 348(6236) 808-812 (2015)
Anja Zeigerer, Roman L Bogorad, Kirti Sharma, Jerome Gilleron, Sarah Seifert, Susanne Sales, Nikolaus Berndt, Sascha Bulik, Giovanni Marsico, Rochelle C J D'Souza, Naharajan Lakshmanaperumal, Kesavan Meganathan, Karthick Natarajan, Agapios Sachinidis, Andreas Dahl, Hermann-Georg Holzhütter, Andrej Shevchenko, Matthias Mann, Victor Koteliansky, Marino Zerial
Regulation of Liver Metabolism by the Endosomal GTPase Rab5.
Cell Rep, 11(6) 884-892 (2015)
Sebastian Dunst, Tom Kazimiers, Felix von Zadow, Helena Jambor, Andreas Sagner, Beate Brankatschk, Ali Mahmoud, Stephanie Spannl, Pavel Tomancak, Suzanne Eaton, Marko Brankatschk
Endogenously Tagged Rab Proteins: A Resource to Study Membrane Trafficking in Drosophila.
Dev Cell, 33(3) 351-365 (2015)
Yuanhao Gong, Ivo F. Sbalzarini
Image Enhancement by Gradient Distribution Specification
In: Proceedings ACCV, 12th Asian Conference on Computer Vision, Workshop on Emerging Topics in Image Enhancement and Restoration (2015) Lecture Notes in Computer Science, New York, Springer (2015), 47-62
Ricard Alert, Jaume Casademunt, Jan Brugués, Pierre Sens
Model for probing membrane-cortex adhesion by micropipette aspiration and fluctuation spectroscopy.
Biophys J, 108(8) 1878-1886 (2015)
Julieta Aprea, Mathias Lesche, Simone Massalini, Silvia Prenninger, Dimitra Alexopoulou, Andreas Dahl, Michael Hiller, Federico Calegari
Identification and expression patterns of novel long non-coding RNAs in neural progenitors of the developing mammalian cortex
Neurogenesis, 2(1) Art. No. e995524 (2015)
Ana Tomasovic, Nina Kurrle, Duran Sürün, Juliana Heidler, Koraljka Husnjak, Ina Poser, Frank Schnütgen, Susan Scheibe, Michael Seimetz, Peter Jaksch, Anthony Hyman, Norbert Weissmann, Harald von Melchner
Sestrin 2 Protein Regulates Platelet-derived Growth Factor Receptor β (Pdgfrβ) Expression by Modulating Proteasomal and Nrf2 Transcription Factor Functions.
J Biol Chem, 290(15) 9738-9752 (2015)
Steffen Werner, Tom Stückemann, Manuel Beirán Amigo, Jochen Rink, Frank Jülicher, Benjamin Friedrich
Scaling and regeneration of self-organized patterns.
Phys Rev Lett, 114(13) Art. No. 138101 (2015)
Marisa P. McShane, Tim Friedrichson, Angelika Giner, Felix Meyenhofer, Rico Barsacchi, Marc Bickle, Marino Zerial
A Combination of Screening and Computational Approaches for the Identification of Novel Compounds That Decrease Mast Cell Degranulation.
J Biomol Screen, 20(6) 720-728 (2015)
Florian Jug, Tobias Pietzsch, Dagmar Kainmueller, Gene Myers
Tracking by Assignment Facilitates Data Curation
In: Medical Image Computing and Computer-Assisted Intervention – MICCAI 2014 (2015) IMIC Interactive Medical Image Computing Workshop, Amsterdam, Netherlands, Academic Press (2015), 1-12
Anna Lenard, Stephan Daetwyler, Charles Betz, Elin Ellertsdottir, Heinz-Georg Belting, Jan Huisken, Markus Affolter
Endothelial Cell Self-fusion during Vascular Pruning.
PLoS Biol, 13(4) Art. No. e1002126 (2015)
Moritz Kreysing, Lorenz Keil, Simon Lanzmich, Dieter Braun
Heat flux across an open pore enables the continuous replication and selection of oligonucleotides towards increasing length.
Nat Chem, 7(3) 203-208 (2015)
Andrea Bassi, Benjamin Schmid, Jan Huisken
Optical tomography complements light sheet microscopy for in toto imaging of zebrafish development.
Development, 142(5) 1016-1020 (2015)
Maria L Begasse, Mark Leaver, Federico Vazquez, Stephan W. Grill, Anthony Hyman
Temperature Dependence of Cell Division Timing Accounts for a Shift in the Thermal Limits of C. elegans and C. briggsae.
Cell Rep, 10(5) 647-653 (2015)
Roberto Villaseñor, Hidenori Nonaka, Perla Del Conte-Zerial, Yannis Kalaidzidis, Marino Zerial
Regulation of EGFR signal transduction by analogue-to-digital conversion in endosomes.
Elife, 4 Art. No. e06156 (2015)
Peter Gabriel Pitrone, Johannes Schindelin, Kevin W Eliceiri, Pavel Tomancak, Pavel Tomancak
OpenSPIM: A do-it-yourself open access light sheet fluorescence microscope
Microsc Anal, 29(16) 7-11 (2015)
Patricia Heyn, Alex T. Kalinka, Pavel Tomancak, Karla M. Neugebauer
Introns and gene expression: Cellular constraints, transcriptional regulation, and evolutionary consequences.
Bioessays, 37(2) 148-154 (2015)
Subramanian Ramanathan, Jonne Helenius, Martin P Stewart, Cedric J Cattin, Anthony Hyman, Daniel J. Müller
Cdk1-dependent mitotic enrichment of cortical myosin II promotes cell rounding against confinement.
Nat Cell Biol, 17(2) 148-159 (2015)
Hanchuan Peng, Eugene W Myers
Constructing 5D developing gene expression patterns without live animal imaging
Biomed Eng Lett, 4(4) 338-346 (2015)
Emmanuel G. Reynaud, Jan Peychl, Jan Huisken, Pavel Tomancak
Guide to light-sheet microscopy for adventurous biologists.
Nat Methods, 12(1) 30-34 (2015)
Rajesh Ramaswamy, George Bourantas, Frank Jülicher, Ivo F. Sbalzarini
A hybrid particle-mesh method for incompressible active polar viscous gels
J Comput Phys, 291 334-361 (2015)
Franziska Decker, Jan Brugués
Dissecting microtubule structures by laser ablation.
Methods Cell Biol, 125 61-75 (2015)
Helena Jambor, Vineeth Surendranath, Alex T. Kalinka, Pavel Mejstrik, Stephan Saalfeld, Pavel Tomancak
Systematic imaging reveals features and changing localization of mRNAs in Drosophila development.
Elife, 4 Art. No. e05003 (2015)
Christoph Häcki, Sylvain Reboux, Ivo F. Sbalzarini
A Self-Organizing Adaptive-Resolution Particle Methods with Anisotropic Kernels
Proc IUTAM, 18 40-55 (2015)
Yannis Kalaidzidis, Inna Kalaidzidis, Marino Zerial
A Probabilistic Method to Quantify the Colocalization of Markers on Intracellular Vesicular Structures Visualized by Light Microscopy.
In: BAYESIAN INFERENCE AND MAXIMUM ENTROPY METHODS IN SCIENCE AND ENGINEERING (MAXENT 2014) (2015)(Eds.) A. Mohammad-Djafari, F. Barbaresco AIP Conference Proceedings ; 1641, Melville, N.Y., AIP (2015), 580-587
Simone Reber, Anthony A. Hyman
Emergent Properties of the Metaphase Spindle
In: Mitosis : a subject collection form Cold Spring Harbor Perspectives in biology. (Eds.) Mitsuhiro Yanagida, Anthony A. Hyman, Jonathon Pines,Cold Spring Harbor, N.Y,Cold Spring Harbor Laboratory Press (2015),31-52
Jeffrey Woodruff, Anthony Hyman
Method: In vitro analysis of pericentriolar material assembly.
Methods Cell Biol, 129 369-382 (2015)
Raphael Etournay, Marko Popović, Matthias Merkel, Amitabha Nandi, Corinna Blasse, Benoit Aigouy, Holger Brandl, Gene Myers, Guillaume Salbreux, Frank Jülicher, Suzanne Eaton
Interplay of cell dynamics and epithelial tension during morphogenesis of the Drosophila pupal wing.
Elife, 4 Art. No. e07090 (2015)
Mitsuhiro Yanagida, Anthony A. Hyman, Jonathon Pines
Mitosis : a subject collection from Cold Spring Harbor Perspectives in biology
Cold Spring Harbor, N.Y, Cold Spring Harbor Laboratory Press (2015), 203 S.
Marc Renz, Cécile Otten, Eva Faurobert, Franziska Rudolph, Yu Zhu, Gwénola Boulday, Johan Duchene, Michaela Mickoleit, Ann-Christin Dietrich, Caroline Ramspacher, Emily Steed, Sandra Manet-Dupé, Alexander Benz, David Hassel, Julien Vermot, Jan Huisken, Elisabeth Tournier-Lasserve, Ute Felbor, Ulrich Sure, Corinne Albiges-Rizo, Salim Abdelilah-Seyfried
Regulation of β1 Integrin-Klf2-Mediated Angiogenesis by CCM Proteins.
Dev Cell, 32(2) 181-190 (2015)
Nurhan Özlü, Mohammad H Qureshi, Yusuke Toyoda, Bernhard Y Renard, Gürkan Mollaoglu, Nazlı E Özkan, Selda Bulbul, Ina Poser, Wiebke Timm, Anthony Hyman, Timothy J. Mitchison, Judith A Steen
Quantitative comparison of a human cancer cell surface proteome between interphase and mitosis.
EMBO J, 34(2) 251-265 (2015)

2014

Gene Myers
Efficient Alignment Discovery amongst Noisy Long Reads
In: 14th International Workshop, WABI 2014, Wroclaw, Poland, September 8-10, 2014. Proceedings (2014) Lecture Notes in Bioinformatics, Vol. 8701, New York, Springer (2014), 52-67
Jan Brugues, Daniel Needleman
Physical basis of spindle self-organization.
Proc Natl Acad Sci U.S.A., 111(52) 18496-18500 (2014)
Mihaela Anitei, Ramu Chenna, Cornelia Czupalla, Milan Esner, Sara Christ, Steffi Lenhard, Kerstin Korn, Felix Meyenhofer, Marc Bickle, Marino Zerial, Bernard Hoflack
A high-throughput siRNA screen identifies genes that regulate mannose 6-phosphate receptor trafficking.
J Cell Sci, 127(23) 5079-5092 (2014)
Dirk Drasdo, Johannes Bode, Uta Dahmen, Olaf Dirsch, Steven Dooley, Rolf Gebhardt, Ahmed Ghallab, Patricio Godoy, Dieter Häussinger, Seddik Hammad, Stefan Hoehme, Hermann-Georg Holzhütter, Ursula Klingmüller, Lars Kuepfer, Jens Timmer, Marino Zerial, Jan G Hengstler
The virtual liver: state of the art and future perspectives.
Arch Toxicol, 88(12) 2071-2075 (2014)
Angela Wandinger-Ness, Marino Zerial
Rab proteins and the compartmentalization of the endosomal system.
Cold Spring Harb Perspect Biol, 6(11) Art. No. a022616 (2014)
Dagmar Kainmueller, Florian Jug, Carsten Rother, Eugene W Myers
Active Graph Matching for Automatic Joint Segmentation and Annotation of C. elegans
In: Medical Image Computing and Computer-Assisted Intervention - MICCAI 2014 : 17th International Conference, Boston, MA, USA, September 14-18, 2014, Proceedings, Part I (2014) Lecture Notes in Computer Science ; 8673 , New York, Springer (2014), 81-88
Florian Jug, Tobias Pietzsch, Dagmar Kainmueller, Jan Funke, Matthias Kaiser, Erik van Nimwegen, Carsten Rother, Gene Myers
Optimal Joint Segmentation and Tracking of Escherichia Coli in the Mother Machine
In: Bayesian and grAphical models for biomedical imaging first international workshop, BAMBI 2014, Cambridge, MA, USA, September 18, 2014 ; revised selected papers (2014) Lecture Notes in Computer Science ; 8677, New York, Springer (2014), 25-36
Eric Lewitus, Iva Kelava, Alex T. Kalinka, Pavel Tomancak, Wieland B. Huttner
An Adaptive Threshold in Mammalian Neocortical Evolution.
PLoS Biol, 12(11) Art. No. e1002000 (2014)
Sandra L Schmid, Alexander Sorkin, Marino Zerial
Endocytosis: Past, Present, and Future.
Cold Spring Harb Perspect Biol, 6(12) Art. No. a022509 (2014)
Bi-Chang Chen, Wesley R Legant, Kai Wang, Lin Shao, Daniel E Milkie, Michael W Davidson, Chris Janetopoulos, Xufeng S Wu, John A Hammer, Zhe Liu, Brian P English, Yuko Mimori-Kiyosue, Daniel P Romero, Alex T Ritter, Jennifer Lippincott-Schwartz, Lillian Fritz-Laylin, R Dyche Mullins, Diana M Mitchell, Joshua N Bembenek, Anne-Cecile Reymann, Ralph Böhme, Stephan W. Grill, Jennifer T Wang, Geraldine Seydoux, U Serdar Tulu, Daniel P Kiehart, Eric Betzig
Lattice light-sheet microscopy: imaging molecules to embryos at high spatiotemporal resolution.
Science, 346(6208) Art. No. 1257998 (2014)
Marnix Wieffer, Marisa P. McShane, Marino Zerial
Rab Proteins and the Organization of Organelle Membrane Domains.
In: Ras Superfamily Small G Proteins: Biology and Mechanisms : 2. (Eds.) Alfred Wittinghofer,Cham,Springer International Publishing (2014),17-38 Ch. 2
Amr El-Labban, A Zisserman, Yusuke Toyoda, Alexander W. Bird, Anthony A. Hyman
Temporal models for mitotic phase labelling.
Med Image Anal, 18(7) 977-988 (2014)
Oliver Wueseke, Jakob Bunkenborg, Marco Y Hein, Andrea Zinke, Valeria Viscardi, Jeffrey Woodruff, Karen Oegema, Matthias Mann, Jens S Andersen, Anthony Hyman
The Caenorhabditis elegans pericentriolar material components SPD-2 and SPD-5 are monomeric in the cytoplasm before incorporation into the PCM matrix.
Mol Biol Cell, 25(19) 2984-2992 (2014)
Jan Philipp Junker, Emily S. Noël, Victor Guryev, Kevin A Peterson, Gopi Shah, Jan Huisken, Andrew P. McMahon, Eugene Berezikov, Jeroen Bakkers, Alexander van Oudenaarden
Genome-wide RNA Tomography in the Zebrafish Embryo.
Cell, 159(3) 662-675 (2014)
Matthias Merkel, Andreas Sagner, Franz Gruber, Raphael Etournay, Corinna Blasse, Gene Myers, Suzanne Eaton, Frank Jülicher
The Balance of Prickle/Spiny-Legs Isoforms Controls the Amount of Coupling between Core and Fat PCP Systems.
Curr Biol, 24(18) 2111-2123 (2014)
Enrico Perini, Ramona Schaefer, Martin Stöter, Yannis Kalaidzidis, Marino Zerial
Mammalian CORVET Is Required for Fusion and Conversion of Distinct Early Endosome Subpopulations.
Traffic, 15(12) 1366-1389 (2014)
Jeffrey Woodruff, Oliver Wueseke, Anthony Hyman
Pericentriolar material structure and dynamics.
Philos Trans R Soc Lond B Biol Sci, 369(1650) Art. No. 20130459 (2014)
Angela Simeone, Giovanni Marsico, Claudio Collinet, Thierry Galvez, Yannis Kalaidzidis, Marino Zerial, Andreas Beyer
Revealing molecular mechanisms by integrating high-dimensional functional screens with protein interaction data.
PLoS Comput Biol, 10(9) Art. No. e1003801 (2014)
Fernando Amat, William Lemon, Daniel P Mossing, Katie McDole, Yinan Wan, Kristin Branson, Eugene W Myers, Patrick Keller
Fast, accurate reconstruction of cell lineages from large-scale fluorescence microscopy data.
Nat Methods, 11(9) 951-958 (2014)
Daiki Umetsu, Benoit Aigouy, Maryam Aliee, Liyuan Sui, Suzanne Eaton, Frank Jülicher, Christian Dahmann
Local increases in mechanical tension shape compartment boundaries by biasing cell intercalations.
Curr Biol, 24(15) 1798-1805 (2014)
Michaela Mickoleit, Benjamin Schmid, Michael Weber, Florian Fahrbach, Sonja Hombach, Sven Reischauer, Jan Huisken
High-resolution reconstruction of the beating zebrafish heart.
Nat Methods, 11(9) 919-922 (2014)
Daniele Soroldoni, David J. Jörg, Luis G. Morelli, David Richmond, Johannes Schindelin, Frank Jülicher, Andrew C. Oates
A Doppler effect in embryonic pattern formation
Science, 345(6193) 222-225 (2014)
David Zwicker, Markus Decker, Steffen Jaensch, Anthony Hyman, Frank Jülicher
Centrosomes are autocatalytic droplets of pericentriolar material organized by centrioles.
Proc Natl Acad Sci U.S.A., 111(26) 2636-2645 (2014)
Lara Scharrel, Rui Ma, Rene Schneider, Frank Jülicher, Stefan Diez
Multimotor transport in a system of active and inactive Kinesin-1 motors.
Biophys J, 107(2) 365-372 (2014)
Karol Szafranski, Claudia Fritsch, Frank Schumann, Lisa Siebel, Rileen Sinha, Jochen Hampe, Michael Hiller, Christoph Englert, Klaus Huse, Matthias Platzer
Physiological state co-regulates thousands of mammalian mRNA splicing events at tandem splice sites and alternative exons.
Nucleic Acids Res, 42(14) 8895-8904 (2014)
Yusuke Toyoda, Cihan Erkut, Francisco Pan-Montojo, Sebastian Boland, Martin P Stewart, Daniel J. Müller, Wolfgang Wurst, Anthony Hyman, Teymuras V. Kurzchalia
Products of the Parkinson's disease-related glyoxalase DJ-1, D-lactate and glycolate, support mitochondrial membrane potential and neuronal survival.
Biol Open, 3(8) 777-784 (2014)
Philipp Khuc Trong, Ernesto M Nicola, Nathan W. Goehring, K Vijay Kumar, Stephan W. Grill
Parameter-space topology of models for cell polarity
New J Phys, 16 Art. No. 065009 (2014)
Vikram Mukundan, Pablo Sartori, Veikko Geyer, Frank Jülicher, Jonathon Howard
Motor regulation results in distal forces that bend partially disintegrated Chlamydomonas axonemes into circular arcs.
Biophys J, 106(11) 2434-2442 (2014)
Michael Kuhn, Anthony Hyman, Andreas Beyer
Coiled-coil proteins facilitated the functional expansion of the centrosome.
PLoS Comput Biol, 10(6) Art. No. e1003657 (2014)
Stephanie Schonegg, Anthony A. Hyman, William B. Wood
Timing and Mechanism of the Initial Cue Establishing Handed Left-Right Asymmetry in Caenorhabditis elegans Embryos
Genesis, 52(6) 572-580 (2014)
Ellie S Heckscher, Fuhui Long, Michael J Layden, Chein-Hui Chuang, Laurina Manning, Jourdain Richart, Joseph C Pearson, Stephen T Crews, Hanchuan Peng, Gene Myers, Chris Q Doe
Atlas-builder software and the eNeuro atlas: resources for developmental biology and neuroscience.
Development, 141(12) 2524-2532 (2014)
K Vijay Kumar, Justin Bois, Frank Jülicher, Stephan W. Grill
Pulsatory Patterns in Active Fluids
Phys Rev Lett, 112 Art. No. 208101 (2014)
Ömer Demirel, Ihor Smal, Wiro J. Niessen, Erik Meijering, Ivo F. Sbalzarini
An adaptive distributed resampling algorithm with non-proportional allocation
In: IEEE International Conference on Acoustics, Speech, and Signal Processing (ICASSP) : Florence, Italy, 4-9 May 2014 (2014), Piscataway, N.J., IEEE (2014), 1635-1639
Zuzanna Błaszczak, Moritz Kreysing, Jochen Guck
Direct observation of light focusing by single photoreceptor cell nuclei
Opt express, 22(9) 11043-11060 (2014)
Stephan Preibisch, Fernando Amat, Evangelia Stamataki, Mihail Sarov, Robert H. Singer, Gene Myers, Pavel Tomancak
Efficient Bayesian-based multiview deconvolution.
Nat Methods, 11(6) 645-648 (2014)
Florian Jug, Tobias Pietzsch, Stephan Preibisch, Pavel Tomancak
Bioimage Informatics in the context of Drosophila research.
Methods, 68(1) 60-73 (2014)
Dan Needleman, Jan Brugues
Determining physical principles of subcellular organization.
Dev Cell, 29(2) 135-138 (2014)
Che-Hang Yu, Noah Langowitz, Hai-Yin Wu, Reza Farhadifar, Jan Brugues, Tae Yeon Yoo, Daniel Needleman
Measuring microtubule polarity in spindles with second-harmonic generation.
Biophys J, 106(8) 1578-1587 (2014)
Aurelien Rizk, Gregory Paul, Pietro Incardona, Milica Bugarski, Maysam Mansouri, Axel Niemann, Urs Ziegler, Philipp Berger, Ivo F. Sbalzarini
Segmentation and quantification of subcellular structures in fluorescence microscopy images using Squassh.
Nat Protoc, 9(3) 586-596 (2014)
Evan Heller, K Vijay Kumar, Stephan W. Grill, Elaine Fuchs
Forces generated by cell intercalation tow epidermal sheets in Mammalian tissue morphogenesis.
Dev Cell, 28(6) 617-632 (2014)
Manuela Weitkunat, Aynur Kaya-Çopur, Stephan W. Grill, Frank Schnorrer
Tension and force-resistant attachment are essential for myofibrillogenesis in Drosophila flight muscle.
Curr Biol, 24(7) 705-716 (2014)
Lola Bajard, Luis G. Morelli, Saul Ares, Jacques Pécréaux, Frank Jülicher, Andrew C. Oates
Wnt-regulated dynamics of positional information in zebrafish somitogenesis.
Development, 141(6) 1381-1391 (2014)
Michael Weber, Michaela Mickoleit, Jan Huisken
Multilayer mounting for long-term light sheet microscopy of zebrafish
J Vis Exp, (84) Art. No. e51119 (2014)
Anthony Hyman
Encouraging innovation.
Mol Biol Cell, 25(4) 427-428 (2014)
Varadharajan Sundaramurthy, Rico Barsacchi, Mikhail Chernykh, Martin Stöter, Nadine Tomschke, Marc Bickle, Yannis Kalaidzidis, Marino Zerial
Deducing the mechanism of action of compounds identified in phenotypic screens by integrating their multiparametric profiles with a reference genetic screen.
Nat Protoc, 9(2) 474-490 (2014)
Ashley L Alvers, Sean Ryan, Paul J Scherz, Jan Huisken, Michel Bagnat
Single continuous lumen formation in the zebrafish gut is mediated by smoothened-dependent tissue remodeling.
Development, 141(5) 1110-1119 (2014)
Patricia Heyn, Martin Kircher, Andreas Dahl, Janet Kelso, Pavel Tomancak, Alex T. Kalinka, Karla M. Neugebauer
The Earliest Transcribed Zygotic Genes Are Short, Newly Evolved, and Different across Species.
Cell Rep, 6(2) 285-292 (2014)
Anthony Hyman, Christian Weber, Frank Jülicher
Liquid-liquid phase separation in biology.
Annu Rev Cell Dev Biol, 30 39-58 (2014)
Moritz Kreysing, Dino Ott, Michael J Schmidberger, Oliver Otto, Markus Schürmann, Estela Martín-Badosa, Graeme Whyte, Jochen Guck
Dynamic operation of optical fibres beyond the single-mode regime facilitates the orientation of biological cells.
Nat Commun, 5 Art. No. 5481 (2014)
Sundar Naganathan, Sebastian Fürthauer, Masatoshi Nishikawa, Frank Jülicher, Stephan W. Grill
Active torque generation by the actomyosin cell cortex drives left-right symmetry breaking.
Elife, 3 Art. No. e04165 (2014)
Michael Weber, Michaela Mickoleit, Jan Huisken
Light sheet microscopy.
Methods Cell Biol, 123 193-215 (2014)
Christopher Schmied, Evangelia Stamataki, Pavel Tomancak
Open-source solutions for SPIMage processing.
Methods Cell Biol, 123 505-529 (2014)
Omar Awile, Ivo F. Sbalzarini
A pthreads wrapper for Fortran 2003
ACM Trans Math Softw, 40(3) Art. No. 19 (2014)
Yuri K. Shestopaloff, Ivo F. Sbalzarini
A method for modeling growth of organs and transplants based on the general growth law: application to the liver in dogs and humans.
PLoS ONE, 9(6) Art. No. e99275 (2014)
Elisabeth Fischer-Friedrich, Anthony Hyman, Frank Jülicher, Daniel J. Müller, Jonne Helenius
Quantification of surface tension and internal pressure generated by single mitotic cells.
Sci Rep, 4 Art. No. 6213 (2014)
Emilio Gualda, Nuno Moreno, Pavel Tomancak, Gabriel G Martins
Going "open" with Mesoscopy: a new dimension on multi-view imaging.
Protoplasma, 251(2) 363-372 (2014)
Josefine Asmus, Daniel Borchmann, Ivo F. Sbalzarini, Dirk Walther
Towards an FCA-based Recommender System for Black-Box Optimization
In: Proceedings of the 3rd International Workshop "What can FCA do for Artificial Intelligence"? co-located with the European Conference on Artificial Intelligence (ECAI 2014) Prague, Czech Republic, August 19, 2014 (2014), Aachen, CEUR Workshop Proceedings (2014), 35-42
Mike Francke, Moritz Kreysing, Andreas Mack, Jacob Engelmann, Anett Karl, Felix Makarov, Jochen Guck, Mathias Kolle, Hartwig Wolburg, Roland Pusch, Gerhard von der Emde, Stefan Schuster, Hans-Joachim Wagner, Andreas Reichenbach
Grouped retinae and tapetal cups in some Teleostian fish: Occurrence, structure, and function.
Prog Retin Eye Res, 38 43-69 (2014)
Chiara Gabella, Elena Bertseva, Céline Bottier, Niccolo Piacentini, Alicia Bornert, Sylvia Jeney, Laszlo Forro, Ivo F. Sbalzarini, J-J Meister, A B Verkhovsky
Contact Angle at the Leading Edge Controls Cell Protrusion Rate
Curr Biol, 24(10) 1126-1132 (2014)
Roman L Bogorad, Hao Yin, Anja Zeigerer, Hidenori Nonaka, Vera M Ruda, Marino Zerial, Daniel G Anderson, Victor Koteliansky
Nanoparticle-formulated siRNA targeting integrins inhibits hepatocellular carcinoma progression in mice.
Nat Commun, 5 Art. No. 3869 (2014)
Britta Weber, Erin M Tranfield, Johanna L Höög, Daniel Baum, Claude Antony, Tony Hyman, Jean-Marc Verbavatz, Steffen Prohaska
Automated Stitching of Microtubule Centerlines across Serial Electron Tomograms.
PLoS ONE, 9(12) Art. No. e113222 (2014)
Stefanie Redemann, Britta Weber, Marit Möller, Jean-Marc Verbavatz, Anthony Hyman, Daniel Baum, Steffen Prohaska, Thomas Müller-Reichert
The segmentation of microtubules in electron tomograms using Amira.
Methods Mol Biol, 1136 261-278 (2014)
Hanchuan Peng, Jianyong Tang, Hang Xiao, Alessandro Bria, Jianlong Zhou, Victoria Butler, Zhi Zhou, Paloma T Gonzalez-Bellido, Seung W Oh, Jichao Chen, Aniruddha Mitra, Richard W Tsien, Hongkui Zeng, Giorgio A Ascoli, Giulio Iannello, Michael Hawrylycz, Eugene Myers, Fuhui Long
Virtual finger boosts three-dimensional imaging and microsurgery as well as terabyte volume image visualization and analysis.
Nat Commun, 5 Art. No. 4342 (2014)
Nicolas Chenouard, Ihor Smal, Fabrice de Chaumont, Martin Maška, Ivo F. Sbalzarini, Yuanhao Gong, Janick Cardinale, Craig Carthel, Stefano Coraluppi, Mark Winter, Andrew R Cohen, William J. Godinez, Karl Rohr, Yannis Kalaidzidis, Liang Liang, James Duncan, Hongying Shen, Yingke Xu, Klas E. G. Magnusson, Joakim Jaldén, Helen M. Blau, Perrine Paul-Gilloteaux, Philippe Roudot, Charles Kervrann, Francois Waharte, Jean-Yves Tinevez, Spencer L Shorte, Joost Willemse, Katherine Celler, Gilles P van Wezel, Han-Wei Dan, Yuh-Show Tsai, Carlos Ortiz de Solórzano, Jean-Christophe Olivo-Marin, Erik Meijering
Objective comparison of particle tracking methods.
Nat Methods, 11(3) 281-289 (2014)
Xiangdong Zheng, Li Ming Gooi, Arpit Wason, Elke Gabriel, Narges Zare Mehrjardi, Qian Yang, Xingrun Zhang, Alain Debec, Marcus L Basiri, Tomer Avidor-Reiss, Andrei I. Pozniakovsky, Ina Poser, Tomo Saric, Anthony Hyman, Haitao Li, Jay Gopalakrishnan
Conserved TCP domain of Sas-4/CPAP is essential for pericentriolar material tethering during centrosome biogenesis.
Proc Natl Acad Sci U.S.A., 111(3) 354-363 (2014)

2013

Julieta Aprea, Silvia Prenninger, Martina Dori, Tanay Ghosh, Laura Sebastian Monasor, Elke Wessendorf, Sara Zocher, Simone Massalini, Dimitra Alexopoulou, Mathias Lesche, Andreas Dahl, Matthias Groszer, Michael Hiller, Federico Calegari
Transcriptome sequencing during mouse brain development identifies long non-coding RNAs functionally involved in neurogenic commitment.
EMBO J, 32(24) 3145-3160 (2013)
Peter Refsing Andersen, Michal Domanski, Maiken S Kristiansen, Helena Storvall, Evgenia Ntini, Celine Verheggen, Aleks Schein, Jakob Bunkenborg, Ina Poser, Marie Hallais, Rickard Sandberg, Anthony Hyman, John Lacava, Michael P Rout, Jens S Andersen, Edouard Bertrand, Torben Heick Jensen
The human cap-binding complex is functionally connected to the nuclear RNA exosome.
Nat Struct Mol Biol, 20(12) 1367-1376 (2013)
Jong-Cheol Rah, Erhan Bas, Jennifer Colonell, Yuriy Mishchenko, Bill Karsh, Richard D Fetter, Eugene W Myers, Dmitri B Chklovskii, Karel Svoboda, Timothy D Harris, John T R Isaac
Thalamocortical input onto layer 5 pyramidal neurons measured using quantitative large-scale array tomography.
Front Neural Circuits, 7 Art. No. 177 (2013)
Veikko Geyer, Frank Jülicher, Jonathon Howard, Benjamin Friedrich
Cell-body rocking is a dominant mechanism for flagellar synchronization in a swimming alga.
Proc Natl Acad Sci U.S.A., 110(45) 18058-18063 (2013)
Saket Navlakha, Parvez Ahammad, Eugene W Myers
Unsupervised segmentation of noisy electron microscopy images using salient watersheds and region merging.
BMC Bioinformatics, 14 Art. No. 294 (2013)
Martin Depken, Juan Parrondo, Stephan W. Grill
Intermittent transcription dynamics for the rapid production of long transcripts of high fidelity.
Cell Rep, 5(2) 521-530 (2013)
Simone Reber, Johannes Baumgart, Per Widlund, Andrei I. Pozniakovsky, Jonathon Howard, Anthony Hyman, Frank Jülicher
XMAP215 activity sets spindle length by controlling the total mass of spindle microtubules
Nat Cell Biol, 15(9) 1116-1122 (2013)
Florian Fahrbach, Fabian F Voigt, Benjamin Schmid, Fritjof Helmchen, Jan Huisken
Rapid 3D light-sheet microscopy with a tunable lens.
Opt express, 21(18) 21010-21026 (2013)
Chiu Fan Lee, Clifford Brangwynne, Joebin Gharakhani, Anthony Hyman, Frank Jülicher
Spatial organization of the cell cytoplasm by position-dependent phase separation.
Phys Rev Lett, 111(8) Art. No. 088101 (2013)
Michael Hiller, Saatvik Agarwal, James H Notwell, Ravi Parikh, Harendra Guturu, Aaron M Wenger, Gill Bejerano
Computational methods to detect conserved non-genic elements in phylogenetically isolated genomes: application to zebrafish.
Nucleic Acids Res, 41(15) Art. No. e151 (2013)
Benjamin Schmid, Gopi Shah, Nico Scherf, Michael Weber, Konstantin Thierbach, Claudia Campos, Ingo Roeder, Pia Aanstad, Jan Huisken
High-speed panoramic light-sheet microscopy reveals global endodermal cell dynamics.
Nat Commun, 4 Art. No. 2207 (2013)
Jerome Gilleron, William Querbes, Anja Zeigerer, Anna Borodovsky, Giovanni Marsico, Undine Schubert, Kevin Manygoats, Sarah Seifert, Cordula Andree, Martin Stöter, Hila Epstein-Barash, Ligang Zhang, Victor Koteliansky, Kevin Fitzgerald, Eugenio Fava, Marc Bickle, Yannis Kalaidzidis, Akin Akinc, Martin A Maier, Marino Zerial
Image-based analysis of lipid nanoparticle-mediated siRNA delivery, intracellular trafficking and endosomal escape.
Nat Biotechnol, 31(7) 638-646 (2013)
Peter Gabriel Pitrone, Johannes Schindelin, Luke Stuyvenberg, Stephan Preibisch, Michael Weber, Kevin W Eliceiri, Jan Huisken, Pavel Tomancak
OpenSPIM: an open access light sheet microscopy platform
Nat Methods, 10(7) 598-599 (2013)
Marija Zanic, Per Widlund, Anthony Hyman, Jonathon Howard
Synergy between XMAP215 and EB1 increases microtubule growth rates to physiological levels.
Nat Cell Biol, 15(6) 688-693 (2013)
Ivo F. Sbalzarini
Modeling and simulation of biological systems from image data.
Bioessays, 35(5) 482-490 (2013)
Carsten Hoege, Anthony Hyman
Principles of PAR polarity in Caenorhabditis elegans embryos.
Nat Rev Mol Cell Biol, 14(5) 315-322 (2013)
A Kyrkou, M Soufi, R Bahtz, Charles Ferguson, M Bai, Robert G. Parton, Ingrid Hoffmann, Marino Zerial, Theodore Fotsis, Carol Murphy
The RhoD to centrosomal duplication.
Small GTPases, 4(2) 116-122 (2013)
A Kyrkou, M Soufi, R Bahtz, Charles Ferguson, M Bai, Robert G. Parton, I Hoffmann, Marino Zerial, Theodore Fotsis, C Murphy
RhoD participates in the regulation of cell-cycle progression and centrosome duplication.
Oncogene, 32(14) 1831-1842 (2013)
Mathias Kolle, Alfred Lethbridge, Moritz Kreysing, Jeremy J Baumberg, Joanna Aizenberg, Peter Vukusic
Bio-inspired band-gap tunable elastic optical multilayer fibers.
Adv Mater, 25(15) 2239-2245 (2013)
Manli Shen, Stanislav Bellaousov, Michael Hiller, Pierre de la Grange, Trevor P Creamer, Orit Malina, Ruth Sperling, David H Mathews, Peter Stoilov, Stefan Stamm
Pyrvinium pamoate changes alternative splicing of the serotonin receptor 2C by influencing its RNA structure.
Nucleic Acids Res, 41(6) 3819-3832 (2013)
Lorenz Pammer, Daniel T O'Connor, S Andrew Hires, Nathan G Clack, Daniel Huber, Eugene W Myers, Karel Svoboda
The mechanical variables underlying object localization along the axis of the whisker.
J Neurosci, 33(16) 6726-6741 (2013)
Hung-Hsiang Yu, Takeshi Awasaki, Michaela Schroeder, Fuhui Long, Jacob S Yang, Yisheng He, Peng Ding, Jui-Chun Kao, Gloria Yueh-Yi Wu, Hanchuan Peng, Gene Myers, Tzumin Lee
Clonal development and organization of the adult Drosophila central brain.
Curr Biol, 23(8) 633-643 (2013)
Zoltan Maliga, Magno Junqueira, Yusuke Toyoda, Andreas Ettinger, Felipe Mora-Bermúdez, Robin Klemm, Andrej Vasilj, E. Guhr, Itziar Ibarlucea-Benitez, Ina Poser, Enzio Bonifacio, Wieland B. Huttner, Andrej Shevchenko, Anthony Hyman
A genomic toolkit to investigate kinesin and myosin motor function in cells.
Nat Cell Biol, 15(3) 325-334 (2013)
Varadharajan Sundaramurthy, Rico Barsacchi, Nikolay Samusik, Giovanni Marsico, Jerome Gilleron, Inna Kalaidzidis, Felix Meyenhofer, Marc Bickle, Yannis Kalaidzidis, Marino Zerial
Integration of chemical and RNAi multiparametric profiles identifies triggers of intracellular mycobacterial killing.
Cell Host Microbe, 13(2) 129-142 (2013)
Michael Hiller
Vom Phänotyp zum Genotyp : Forward Genomics - ein neuer Ansatz der vergleichenden Sequenzanalyse
Biologie in unserer Zeit, 43(1) 34-39 (2013)
Nathan Goehring, Stephan W. Grill
Cell polarity: mechanochemical patterning.
Trends Cell Biol, 23(2) 72-80 (2013)
Ferit Büyükkeçeci, Omar Awile, Ivo F. Sbalzarini
A portable OpenCL implementation of generic particle-mesh and mesh-particle interpolation 2D and 3D
Parallel Comput, 39(2) 94-111 (2013)
Jean-Léon Maître, Hélène Berthoumieux, Simon Frederick Gabriel Krens, Guillaume Salbreux, Frank Jülicher, Ewa Paluch, Carl-Philipp Heisenberg
[Cell adhesion mechanics of zebrafish gastrulation].
Med Sci (Paris), 29(2) 147-150 (2013)
Fernando Amat, Eugene W Myers, Patrick Keller
Fast and robust optical flow for time-lapse microscopy using super-voxels.
Bioinformatics, 29(3) 373-380 (2013)
Michael C Bassik, Martin Kampmann, Robert Jan Lebbink, Shuyi Wang, Marco Y Hein, Ina Poser, Jimena Weibezahn, Max A Horlbeck, Siyuan Chen, Matthias Mann, Anthony A. Hyman, Emily M Leproust, Michael T McManus, Jonathan S. Weissman
A systematic Mammalian genetic interaction map reveals pathways underlying ricin susceptibility.
Cell, 152(4) 909-922 (2013)
Sebastian Fürthauer, M. Strempel, Stephan W. Grill, Frank Jülicher
Active Chiral Processes in Thin Films
Phys Rev Lett, 110(4) Art. No. 048103 (2013)
Arne H Smits, Pascal W T C Jansen, Ina Poser, Anthony A. Hyman, Michiel Vermeulen
Stoichiometry of chromatin-associated protein complexes revealed by label-free quantitative mass spectrometry-based proteomics.
Nucleic Acids Res, 41(1) Art. No. e28 (2013)
Anthony Hyman
Funding innovative science.
Science, 339(6116) 119-119 (2013)
Eugene W Myers
What's behind Blast
In: Models and Algorithms for Genome Evolution (MAGE) (2013) Computational Biology 19, New York, Springer (2013), 3-15
Yuanhao Gong, Ivo F. Sbalzarini
Local weighted Gaussian curvature for image processing
In: 2013 IEEE International Conference on Image Processing (ICIP 2013) : Melbourne, Australia, 15 - 18 September (2013), Piscataway, N.J., IEEE (2013), 534-538
Gregory Paul, Janick Cardinale, Ivo F. Sbalzarini
Coupling Image Restoration and Segmentation: A Generalized Linear Model/Bregman Perspective
Int J Comput Vis, 104(1) 69-93 (2013)
Nicolas Fietier, Ömer Demirel, Ivo F. Sbalzarini
A meshless particle method for Poisson and diffusion problems with discontinuous coefficients and inhomogeneous boundary conditions
SIAM J Sci Comput, 35(6) 2469-2493 (2013)
Omar Awile, Milan Mitrovic, Sylvain Reboux, Ivo F. Sbalzarini
A domain-specific programming language for particle simulations on distributed-memory parallel computers
In: Particle-based methods III : fundamentals and applications ; proceedings of the III International Conference on Particle-Based Methods, Fundamentals and Applications (Particles 2013), Stuttgart, 18 - 20 September (2013), Barcelona, International Center for Numerical Methods in Engineering (CIMNE) (2013), 436-447
Arun Shivanandan, Aleksandra Radenovic, Ivo F. Sbalzarini
MosaicIA: an ImageJ/Fiji plugin for spatial pattern and interaction analysis
BMC Bioinformatics, 14 Art. No. 349 (2013)
Eric Lewitus, Iva Kelava, Alex T. Kalinka, Pavel Tomancak, Wieland B. Huttner
An Adaptive Threshold in Mammalian Neocortical Evolution
arXiv, Art. No. doi: 10.1101/001289 (2013)
Bruno Thomas Fievet, Josana Rodriguez, Sundar Naganathan, Christine Lee, Eva Zeiser, Takao Ishidate, Masaki Shirayama, Stephan W. Grill, Julie Ahringer
Systematic genetic interaction screens uncover cell polarity regulators and functional redundancy.
Nat Cell Biol, 15(1) 103-112 (2013)
Julia Mahamid, Anthony Hyman, Wolfgang Baumeister
Toward Exploring the 3D Supramolecular Architecture of Centrosomes In-Situ
In: Advances in Imaging and Electron Physics ; Vol. 179. (Eds.) Peter W. Hawkes,Amsterdam, Netherlands,Academic Press (2013),147-147
Oliwia M. Szklarczyk, Nélido González-Segredo, Philipp Kukura, Ariella Oppenheim, Daniel Choquet, Vahid Sandoghdar, Ari Helenius, Ivo F. Sbalzarini, Helge Ewers
Receptor Concentration and Diffusivity Control Multivalent Binding of SV40 to Membrane Bilayers
PLoS Comput Biol, 9(11) Art. No. e1003310 (2013)
Vineeth Surendranath, Mirko Theis, Bianca Habermann, Frank Buchholz
Designing efficient and specific endoribonuclease-prepared siRNAs.
Methods Mol Biol, 942 193-204 (2013)
Vincent Fraisier, Amal Kasri, Stéphanie Miserey-Lenkei, Jean-Baptiste Sibarita, Deepak Nair, Adeline Mayeux, Sabine Bardin, Yusuke Toyoda, Ina Poser, Anton A Poznyakovskiy, Bruno Goud, Anthony Hyman, Ariane Dimitrov
C11ORF24 Is a Novel Type I Membrane Protein That Cycles between the Golgi Apparatus and the Plasma Membrane in Rab6-Positive Vesicles.
PLoS ONE, 8(12) Art. No. e82223 (2013)

2012

Jerome Gilleron, Anja Zeigerer, Giovanni Marsico, Thierry Galvez, Marino Zerial
[Key role of Rab5: from endosome biogenesis to liver metabolism].
Med Sci (Paris), 28(12) 1041-1044 (2012)
Melek Asli Kayserili, Dave T. Gerrard, Pavel Tomancak, Alex T. Kalinka
An excess of gene expression divergence on the x chromosome in Drosophila embryos: implications for the faster-x hypothesis.
PLoS Genet, 8(12) Art. No. e1003200 (2012)
Katharine Mellman, Jan Huisken, Colin Dinsmore, Cornelia Hoppe, Didier Y.R. Stainier
Fibrillin-2b regulates endocardial morphogenesis in zebrafish.
Dev Biol, 372(1) 111-119 (2012)
Robert Opitz, Emilie Maquet, Jan Huisken, Francesco Antonica, Achim Trubiroha, Gaëlle Pottier, Veerle Janssens, Sabine Costagliola
Transgenic zebrafish illuminate the dynamics of thyroid morphogenesis and its relationship to cardiovascular development.
Dev Biol, 372(2) 203-216 (2012)
Clifford Brangwynne, Anthony A. Hyman
The Origin of Life
Nature, 491(7425) 524-525 (2012)
Per Widlund, Marija Podolski, Simone Reber, Joshua Alper, Marko Storch, Anthony Hyman, Jonathon Howard, David N. Drechsel
One-step purification of assembly-competent tubulin from diverse eukaryotic sources.
Mol Biol Cell, 23(22) 4393-4401 (2012)
Kristina Uzunova, Billy T Dye, Hannelore Schutz, Rene Ladurner, Georg Petzold, Yusuke Toyoda, Marc A Jarvis, Nicholas G Brown, Ina Poser, Maria Novatchkova, Karl Mechtler, Anthony A. Hyman, Holger Stark, Brenda A Schulman, Jan-Michael Peters
APC15 mediates CDC20 autoubiquitylation by APC/C(MCC) and disassembly of the mitotic checkpoint complex.
Nat Struct Mol Biol, 19(11) 1116-1123 (2012)
Daniël Splinter, David S Razafsky, Max A Schlager, Andrea Serra-Marques, Ilya Grigoriev, Jeroen Demmers, Nanda Keijzer, Kai Jiang, Ina Poser, Anthony Hyman, Casper C Hoogenraad, Stephen J King, Anna Akhmanova
BICD2, dynactin, and LIS1 cooperate in regulating dynein recruitment to cellular structures.
Mol Biol Cell, 23(21) 4226-4241 (2012)
E. Ullner, Saul Ares, Luis G. Morelli, Andrew C. Oates, Frank Jülicher, Ernesto M Nicola, R. Heussen, D. Whitmore, K. Blyuss, M. Fryett, A. Zakharova, A. Koseska, N. R. Nene, A. Zaikin
Noise and oscillations in biological systems: multidisciplinary approach between experimental biology, theoretical modelling and synthetic biology
Int J Mod Phys B, 26(25) Art. No. 1246009 (2012)
Michael Hiller, Bruce T Schaar, Gill Bejerano
Hundreds of conserved non-coding genomic regions are independently lost in mammals.
Nucleic Acids Res, 40(22) 11463-11476 (2012)
Michael Hiller, Bruce T Schaar, Vahan B Indjeian, David M Kingsley, Lee R Hagey, Gill Bejerano
A "Forward Genomics" Approach Links Genotype to Phenotype using Independent Phenotypic Losses among Related Species.
Cell Rep, 2(4) 817-823 (2012)
Martin Behrndt, Guillaume Salbreux, Pedro Campinho, Robert Hauschild, Felix Oswald, Julia Roensch, Stephan W. Grill, Carl-Philipp Heisenberg
Forces driving epithelial spreading in zebrafish gastrulation.
Science, 338(6104) 257-260 (2012)
Arnim Jenett, Gerald M Rubin, Teri-T B Ngo, David Shepherd, Christine Murphy, Heather Dionne, Barret D Pfeiffer, Amanda Cavallaro, Donald Hall, Jennifer Jeter, Nirmala Iyer, Dona Fetter, Joanna H Hausenfluck, Hanchuan Peng, Eric T Trautman, Robert R Svirskas, Eugene W Myers, Zbigniew R Iwinski, Yoshinori Aso, Gina M DePasquale, Adrianne Enos, Phuson Hulamm, Shing Chun Benny Lam, Hsing-Hsi Li, Todd R Laverty, Fuhui Long, Lei Qu, Sean D Murphy, Konrad Rokicki, Todd Safford, Kshiti Shaw, Julie H Simpson, Allison Sowell, Susana Tae, Yang Yu, Christopher T Zugates
A GAL4-driver line resource for Drosophila neurobiology.
Cell Rep, 2(4) 991-1001 (2012)
S Fürthauer, M. Strempel, Stephan W. Grill, Frank Jülicher
Active chiral fluids.
Eur Phys J E Soft Matter, 35(9) Art. No. 89 (2012)
Anna Kaufmann, Michaela Mickoleit, Michael Weber, Jan Huisken
Multilayer mounting enables long-term imaging of zebrafish development in a light sheet microscope.
Development, 139(17) 3242-3247 (2012)
Thierry Galvez, Jerome Gilleron, Marino Zerial, Gregory A O'Sullivan
SnapShot: Mammalian Rab proteins in endocytic trafficking.
Cell, 151(1) Art. No. 234-234.e2. (2012)
Artur Yakimovich, Heidi Gumpert, C J Burckhardt, Verena A Lütschg, Andreas Jurgeit, Ivo F. Sbalzarini, U F Greber
Cell-free transmission of human adenovirus by passive mass transfer in cell culture simulated in a computer model.
J Virol, 86(18) 10123-10137 (2012)
Mihail Sarov, John I Murray, Kristin Schanze, Andrei Pozniakovski, Wei Niu, Karolin Angermann, Susanne Hasse, Michaela Rupprecht, Elisabeth Vinis, Matthew Tinney, Elicia A. Preston, Andrea Zinke, Susanne Enst, Tina Teichgraber, Judith Janette, Kadri Reis, Stephan Janosch, Siegfried Schloissnig, Radoslaw K Ejsmont, Cindie Slightam, Xiao Xu, Stuart K Kim, Valerie Reinke, A Francis Stewart, Michael Snyder, Robert H Waterston, Anthony A. Hyman
A Genome-Scale Resource for In Vivo Tag-Based Protein Function Exploration in C. elegans.
Cell, 150(4) 855-866 (2012)
Lionel Foret, Jonathan E Dawson, Roberto Villaseñor, Claudio Collinet, Andreas Deutsch, Lutz Brusch, Marino Zerial, Yannis Kalaidzidis, Frank Jülicher
A General Theoretical Framework to Infer Endosomal Network Dynamics from Quantitative Image Analysis.
Curr Biol, 22(15) 1381-1390 (2012)
Anthony A. Hyman, Kai Simons
Cell biology. Beyond oil and water--phase transitions in cells.
Science, 337(6098) 1047-1049 (2012)
Janick Cardinale, Gregory Paul, Ivo F. Sbalzarini
Discrete region competition for unknown numbers of connected regions
IEEE Trans Image Process, 21(8) 3531-3545 (2012)
Jean-Léon Maître, Hélène Berthoumieux, Simon Frederik Gabriel Krens, Guillaume Salbreux, Frank Jülicher, Ewa Paluch, Carl-Philipp Heisenberg
Adhesion Functions in Cell Sorting by Mechanically Coupling the Cortices of Adhering Cells.
Science, 338(6104) 253-256 (2012)
Bjoern Hiller, Martin Achleitner, Silke Glage, Ronald Naumann, Raymond Behrendt, Axel Roers
Mammalian RNase H2 removes ribonucleotides from DNA to maintain genome integrity.
J Exp Med, 209(8) 1419-1426 (2012)
David B Thompson, Roberto Villaseñor, Brent M Dorr, Marino Zerial, David R Liu
Cellular uptake mechanisms and endosomal trafficking of supercharged proteins.
Chem Biol, 19(7) 831-843 (2012)
Claudia Wurzenberger, Michael Held, Michael A Lampson, Ina Poser, Anthony A. Hyman, Daniel W Gerlich
Sds22 and Repo-Man stabilize chromosome segregation by counteracting Aurora B on anaphase kinetochores.
J Cell Biol, 198(2) 173-183 (2012)
Gene Myers
Why bioimage informatics matters.
Nat Methods, 9(7) 659-660 (2012)
Michael Weber, Jan Huisken
Omnidirectional microscopy.
Nat Methods, 9(7) 656-657 (2012)
Julia Franziska Winter, Sebastian Höpfner, Kerstin Korn, Benjamin Farnung, Charles R. Bradshaw, Giovanni Marsico, Michael Volkmer, Bianca Habermann, Marino Zerial
Caenorhabditis elegans screen reveals role of PAR-5 in RAB-11-recycling endosome positioning and apicobasal cell polarity.
Nat Cell Biol, 14(7) 666-676 (2012)
Andreas Sagner, Matthias Merkel, Benoit Aigouy, Julia Gaebel, Marko Brankatschk, Frank Jülicher, Suzanne Eaton
Establishment of Global Patterns of Planar Polarity during Growth of the Drosophila Wing Epithelium.
Curr Biol, 22(14) 1296-1301 (2012)
C Schmees, Roberto Villaseñor, W Zheng, H Ma, Marino Zerial, Carl-Henrik Heldin, C Hellberg
Macropinocytosis of the PDGF β-receptor promotes fibroblast transformation by H-RasG12V.
Mol Biol Cell, 23(13) 2571-2582 (2012)
Christian Schröter, Saul Ares, Luis G. Morelli, Alina Isakova, Korneel Hens, Daniele Soroldoni, Martin Gajewski, Frank Jülicher, Sebastian J Maerkl, Bart Deplancke, Andrew C. Oates
Topology and dynamics of the zebrafish segmentation clock core circuit
PLoS Biol, 10(7) Art. No. e1001364 (2012)
Albert Cardona, Pavel Tomancak
Current challenges in open-source bioimage informatics.
Nat Methods, 9(7) 661-665 (2012)
Johannes Schindelin, Ignacio Arganda-Carreras, Erwin Frise, Verena Kaynig, Mark Longair, Tobias Pietzsch, Stephan Preibisch, Curtis Rueden, Stephan Saalfeld, Benjamin Schmid, Jean-Yves Tinevez, Dan White, Volker Hartenstein, Kevin W Eliceiri, Pavel Tomancak, Albert Cardona
Fiji: an open-source platform for biological-image analysis.
Nat Methods, 9(7) 676-682 (2012)
Kevin W Eliceiri, Michael R Berthold, Ilya G Goldberg, Luis Ibáñez, B S Manjunath, Maryann E Martone, Robert F Murphy, Hanchuan Peng, Anne L Plant, Badrinath Roysam, Nico Stuurmann, Jason R Swedlow, Pavel Tomancak, Anne E Carpenter
Biological imaging software tools.
Nat Methods, 9(7) 697-710 (2012)
Adam Frost, Marc G Elgort, Onn Brandman, Clinton Ives, Sean R. Collins, Lakshmi Miller-Vedam, Jimena Weibezahn, Marco Y Hein, Ina Poser, Matthias Mann, Anthony A. Hyman, Jonathan S. Weissman
Functional repurposing revealed by comparing S. pombe and S. cerevisiae genetic interactions.
Cell, 149(6) 1339-1352 (2012)
Maryam Aliee, Jens-Christian Röper, Katharina Landsberg, Constanze Pentzold, Thomas Widmann, Frank Jülicher, Christian Dahmann
Physical mechanisms shaping the Drosophila dorsoventral compartment boundary
Curr Biol, 22(11) 967-976 (2012)
Ivo F. Sbalzarini
Active flows cluster cell surface proteins.
Dev Cell, 22(6) 1121-1122 (2012)
Stephan Saalfeld, Richard Fetter, Albert Cardona, Pavel Tomancak
Elastic volume reconstruction from series of ultra-thin microscopy sections.
Nat Methods, 9(7) 717-720 (2012)
Moritz Kreysing, Roland Pusch, Dorothee Haverkate, Meik Landsberger, Jacob Engelmann, Janina Ruiter, Carlos Mora-Ferrer, Elke Ulbricht, Jens Grosche, Kristian Franze, Stefan Streif, Sarah Schumacher, Felix Makarov, Johannes Kacza, Jochen Guck, Hartwig Wolburg, James K Bowmaker, Gerhard von der Emde, Stefan Schuster, Hans-Joachim Wagner, Andreas Reichenbach, Mike Francke
Photonic crystal light collectors in fish retina improve vision in turbid water.
Science, 336(6089) 1700-1703 (2012)
Rico Barsacchi, Varadharajan Sundaramurthy, Kees Korbee, Jacques Neefjes, Tom H. M. Ottenhoff, Tiziana Scanu, Marino Zerial
Manipulating the Fight Between Human Host Cells and Intracellular Pathogens
In: Systems Microbiology: Current Topics and Applications. (Eds.) Brian D. Robertson, Brendan W. Wren,Norfolk,Caister Acad. Press (2012),77-94 Ch. 5
Anja Zeigerer, Jerome Gilleron, Roman L Bogorad, Giovanni Marsico, Hidenori Nonaka, Sarah Seifert, Hila Epstein-Barash, Satya Kuchimanchi, Chang Geng Peng, Vera M Ruda, Perla Del Conte-Zerial, Jan G Hengstler, Yannis Kalaidzidis, Victor Koteliansky, Marino Zerial
Rab5 is necessary for the biogenesis of the endolysosomal system in vivo.
Nature, 485(7399) 465-470 (2012)
Saul Ares, Luis G. Morelli, David J. Jörg, Andrew C. Oates, Frank Jülicher
Collective Modes of Coupled Phase Oscillators with Delayed Coupling
Phys Rev Lett, 108(20) Art. No. 204101 (2012)
Sylvain Reboux, Birte Schrader, Ivo F. Sbalzarini
A self-organizing Lagrangian particle method for adaptive-resolution advection–diffusion simulations
J Comput Phys, 231(9) 3623-3646 (2012)
Nathan Goehring, Anthony A. Hyman
Organelle growth control through limiting pools of cytoplasmic components.
Curr Biol, 22(9) 330-339 (2012)
Britta Weber, Garrett Greenan, Steffen Prohaska, Daniel Baum, Hans-Christian Hege, Thomas Müller-Reichert, Anthony A. Hyman, Jean-Marc Verbavatz
Automated tracing of microtubules in electron tomograms of plastic embedded samples of Caenorhabditis elegans embryos.
J Struct Biol, 178(2 SI) 129-138 (2012)
Erhan Bas, Eugene Myers, Mustafa G. Uzunbas, Dimitris Metaxsas
Contextual grouping in a concept: a multistage decision strategy for EM segmentation
In: Conference on Bioinformatics and Biomedicine Barcelona, Spain, 2012 (2012), Amsterdam, Netherlands, Academic Press (2012), 1-8
Alex T. Kalinka, Pavel Tomancak
The evolution of early animal embryos: conservation or divergence?
Trends Ecol Evol, 27(7) 385-393 (2012)
Matthias Stein, Manohar Pilli, Sabine Bernauer, Bianca Habermann, Marino Zerial, Rebecca C Wade
The interaction properties of the human Rab GTPase family--comparative analysis reveals determinants of molecular binding selectivity.
PLoS ONE, 7(4) Art. No. e34870 (2012)
Jan Brugués, Valeria Nuzzo, Eric Mazur, Daniel Needleman
Nucleation and transport organize microtubules in metaphase spindles.
Cell, 149(3) 554-564 (2012)
Jan Huisken
Slicing embryos gently with laser light sheets.
Bioessays, 34(5) 406-411 (2012)
Bettina C Kirchmaier, Kar Lai Poon, Thorsten Schwerte, Jan Huisken, Christoph Winkler, Benno Jungblut, Didier Y.R. Stainier, Thomas Brand
The Popeye domain containing 2 (popdc2) gene in zebrafish is required for heart and skeletal muscle development.
Dev Biol, 363(2) 438-450 (2012)
Cristina Aguirre-Portolés, Alexander W. Bird, Anthony A. Hyman, Marta Cañamero, Ignacio Pérez de Castro, Marcos Malumbres
Tpx2 controls spindle integrity, genome stability, and tumor development.
Cancer Res, 72(6) 1518-1528 (2012)
Sebastian Fürthauer, Maaike Neeft, Stephan W. Grill, Karsten Kruse, Frank Jülicher
The Taylor-Couette motor: spontaneous flows of active polar fluids between two coaxial cylinders
New J Phys, 14(2) Art. No. e023001 (2012)
Mark E. Ambühl, C Brepsant, J-J Meister, A B Verkhovsky, Ivo F. Sbalzarini
High-resolution cell outline segmentation and tracking from phase-contrast microscopy images.
J Microsc, 245(2) 161-170 (2012)
Iva Kelava, Isabel Reillo, Ayako Y Murayama, Alex T. Kalinka, Denise Stenzel, Pavel Tomancak, Fumio Matsuzaki, Cécile Lebrand, Erika Sasaki, Jens C Schwamborn, Hideyuki Okano, Wieland B. Huttner, Víctor Borrell
Abundant occurrence of basal radial glia in the subventricular zone of embryonic neocortex of a lissencephalic primate, the common marmoset Callithrix jacchus.
Cereb Cortex, 22(2) 469-481 (2012)
Heiko Dückert, Verena Pries, Vivek Khedkar, Sascha Menninger, Hanna Bruss, Alexander W. Bird, Zoltan Maliga, Andreas Brockmeyer, Petra Janning, Anthony A. Hyman, Stefan Grimme, Markus Schürmann, Hans Preut, Katja Hübel, Slava Ziegler, Kamal Kumar, Herbert Waldmann
Natural product-inspired cascade synthesis yields modulators of centrosome integrity.
Nat Chem Biol, 8(2) 179-184 (2012)
Martin Depken, Juan MR Parrondo , Stephan W. Grill
Irregular transcription dynamics for rapid production of high-fidelity transcripts
arXiv, Art. No. 1201.5344 [q-bio.BM] (2012)
Christian L. Müller, Ivo F. Sbalzarini
Energy landscapes of atomic clusters as black box optimization benchmarks.
Evol Comput, 20(4) 543-573 (2012)
Michael Hiller
Analysis of pre-mRNA secondary structures and alternative splicing
In: Alternative pre-mRNA splicing : theory and protocols. (Eds.) Stefan Stamm, Chris Smith, Reinhard Lührmann,Weinheim,Wiley-Blackwell (2012),575-580
Christian L. Müller, Rajesh Ramaswamy, Ivo F. Sbalzarini
Global parameter identification of stochastic reaction networks from single trajectories.
Adv Exp Med Biol, 736 477-498 (2012)
Birte Schrader, Sylvain Reboux, Ivo F. Sbalzarini
Choosing the best kernel: performance models for diffusion operators in particle methods
SIAM J Sci Comput, 34(3) 1607-1634 (2012)
Omar Awile, Ferit Büyükkeçeci, Sylvain Reboux, Ivo F. Sbalzarini
Fast neighbor lists for adaptive-resolution particle simulations
Comput Phys Commun, 183(5) 1073-1081 (2012)
Yuanhao Gong, Gregory Paul, Ivo F. Sbalzarini
Coupled signed-distance functions for implicit surface reconstruction
In: Proc. IEEE Intl. Symposium Biomedical Imaging (ISBI) (2012), Piscataway, N.J., IEEE (2012), 1000-1003
Nathan G Clack, Daniel T O'Connor, Daniel Huber, Leopoldo Petreanu, Andrew Hires, Simon Peron, Karel Svoboda, Eugene W Myers
Automated tracking of whiskers in videos of head fixed rodents.
PLoS Comput Biol, 8(7) Art. No. e1002591 (2012)
Mirjam Mayer, Guillaume Salbreux, Stephan W. Grill
Biophysics of Cell Developmental Processes: A Lasercutter's Perspective
Comprehensive Biophysics, 7 194-207 (2012)
Tobias Pietzsch, Stephan Preibisch, Pavel Tomancak, Stephan Saalfeld
ImgLib2 – Generic Image Processing in Java
Bioinformatics, 28(22) 3009-3011 (2012)
Rajesh Ramaswamy, Nélido González-Segredo, Ivo F. Sbalzarini, Ramon Grima
Discreteness-induced concentration inversion in mesoscopic chemical systems
Nat Commun, 3 Art. No. 779 (2012)
Albert Cardona, Stephan Saalfeld, Johannes Schindelin, Ignacio Arganda-Carreras, Stephan Preibisch, Mark Longair, Pavel Tomancak, Volker Hartenstein, Rodney J Douglas
TrakEM2 Software for Neural Circuit Reconstruction.
PLoS ONE, 7(6) Art. No. e38011 (2012)
Martin P Stewart, Yusuke Toyoda, Anthony A. Hyman, Daniel J. Müller
Tracking mechanics and volume of globular cells with atomic force microscopy using a constant-height clamp.
Nat Protoc, 7(1) 143-154 (2012)
Jinhyun Kim, Ting Zhao, Ronald S Petralia, Yang Yu, Hanchuan Peng, Eugene Myers, Jeffrey C Magee
mGRASP enables mapping mammalian synaptic connectivity with light microscopy.
Nat Methods, 9(1) 96-102 (2012)
Alexander W. Bird, Axel Erler, Jun Fu, Jean-Karim Hériché, Marcello Maresca, Youming Zhang, Anthony A. Hyman, A Francis Stewart
High-efficiency counterselection recombineering for site-directed mutagenesis in bacterial artificial chromosomes.
Nat Methods, 9(1) 103-109 (2012)
Massimilano Scolz, Per Widlund, Silvano Piazza, Debora Rosa Bublik, Simone Reber, Leticia Y Peche, Yari Ciani, Nina Hubner, Mayumi Isokane, Martin Monte, Jan Ellenberg, Anthony Hyman, Claudio Schneider, Alexander W. Bird
GTSE1 is a microtubule plus-end tracking protein that regulates EB1-dependent cell migration.
PLoS ONE, 7(12) Art. No. e51259 (2012)

2011

Anthony A. Hyman
Whither systems biology.
Philos Trans R Soc Lond B Biol Sci, 366(1584) 3635-3637 (2011)
Anthony A. Hyman, Kai Simons
Beyond HeLa cells
Nature, 480(7375) 34-34 (2011)
Simone Reber, Anthony A. Hyman
Samurai sword sets spindle size.
Cell, 147(6) 1224-1225 (2011)
Suzanne Eaton, Frank Jülicher
Cell flow and tissue polarity patterns.
Curr Opin Genet Dev, 21(6) 747-752 (2011)
Rajesh Ramaswamy, Ivo F. Sbalzarini
Exact on-lattice stochastic reaction-diffusion simulations using partial-propensity methods
J Chem Phys, 135(24) Art. No. 244103 (2011)
Jo A. Helmuth, Sylvain Reboux, Ivo F. Sbalzarini
Exact stochastic simulations of intra-cellular transport by mechanically coupled molecular motors
J Comput Sci, 2(4) 324-334 (2011)
Min Liu, Hanchuan Peng, Amit K. Roy-Chowdhury, Eugene Myers
3D Neuron Tip Detection in Volumetric Microscopy Images
In: IEEE international Conference on Bioinformatics and Biomedicine (2011), Piscataway, N.J., IEEE (2011), 366-371
Björn Hegemann, James R A Hutchins, Otto Hudecz, Maria Novatchkova, Jonathan Rameseder, Martina M Sykora, Shang-Yun Liu, Michael Mazanek, Péter Lénárt, Jean-Karim Hériché, Ina Poser, Norbert Kraut, Anthony A. Hyman, Michael B Yaffe, Karl Mechtler, Jan-Michael Peters
Systematic phosphorylation analysis of human mitotic protein complexes.
Sci Signal, 4(198) Art. No. rs12 (2011)
Louis Leung, Abigail Klopper, Stephan W. Grill, William A Harris, Caren Norden
Apical migration of nuclei during G2 is a prerequisite for all nuclear motion in zebrafish neuroepithelia.
Development, 138(22) 5003-5013 (2011)
Céline Bottier, Chiara Gabella, Benoît Vianay, Lara Buscemi, Ivo F. Sbalzarini, J-J Meister, A B Verkhovsky
Dynamic measurement of the height and volume of migrating cells by a novel fluorescence microscopy technique.
Lab on a chip, 11(22) 3855-3863 (2011)
Antigoni Elefsinioti, Ömer Sinan Saraç, Anna Hegele, Conrad Plake, Nina C Hubner, Ina Poser, Mihail Sarov, Anthony A. Hyman, Matthias Mann, Michael Schroeder, Ulrich Stelzl, Andreas Beyer
Large-scale de novo prediction of physical protein-protein association.
Mol Cell Proteomics, 10(11) Art. No. M111.010629 (2011)
Nathan Goehring, Philipp Khuc Trong, Justin Bois, Debanjan Chowdhury, Ernesto M Nicola, Anthony A. Hyman, Stephan W. Grill
Polarization of PAR Proteins by Advective Triggering of a Pattern-Forming System.
Science, 334(6059) 1137-1141 (2011)
Stephan W. Grill
Growing up is stressful: biophysical laws of morphogenesis.
Curr Opin Genet Dev, 21(5) 647-652 (2011)
Asifa Akhtar, Elaine Fuchs, Timothy J. Mitchison, Reuben J Shaw, Daniel St Johnston, Andreas Strasser, Susan Taylor, Claire E. Walczak, Marino Zerial
A decade of molecular cell biology: achievements and challenges.
Nat Rev Mol Cell Biol, 12(10) 669-674 (2011)
Yohei Yamauchi, Heithem Boukari, Indranil Banerjee, Ivo F. Sbalzarini, Peter Horvath, Ari Helenius
Histone deacetylase 8 is required for centrosome cohesion and influenza A virus entry
PLoS Pathog, 7(10) 1002316-1002316 (2011)
Jun Xie, Ting Zhao, Tzumin Lee, Eugene Myers, Hanchuan Peng
Anisotropic path searching for automatic neuron reconstruction.
Med Image Anal, 15(5) 680-689 (2011)
Lei Qu, Fuhui Long, Xiao Liu, Stuart Kim, Eugene Myers, Hanchuan Peng
Simultaneous recognition and segmentation of cells: application in C.elegans.
Bioinformatics, 27(20) 2895-2902 (2011)
Michael Weber, Jan Huisken
Light sheet microscopy for real-time developmental biology.
Curr Opin Genet Dev, 21(5) 566-572 (2011)
Ting Zhao, Jun Xie, Fernando Amat, Nathan G Clack, Parvez Ahammad, Hanchuan Peng, Fuhui Long, Eugene Myers
Automated reconstruction of neuronal morphology based on local geometrical and global structural models.
Neuroinformatics, 9(2-3) 247-261 (2011)
Hanchuan Peng, Fuhui Long, Ting Zhao, Eugene Myers
Proof-editing is the bottleneck of 3D neuron reconstruction: the problem and solutions.
Neuroinformatics, 9(2-3) 103-105 (2011)
Matilde Galli, Javier Muñoz, Vincent Portegijs, Mike Boxem, Stephan W. Grill, Albert J R Heck, Sander van den Heuvel
aPKC phosphorylates NuMA-related LIN-5 to position the mitotic spindle during asymmetric division.
Nat Cell Biol, 13(9) 1132-1138 (2011)
Markus Decker, Steffen Jaensch, Andrei I. Pozniakovsky, Andrea Zinke, Kevin F O'Connell, Wolfgang Zachariae, Eugene Myers, Anthony A. Hyman
Limiting amounts of centrosome material set centrosome size in C. elegans embryos.
Curr Biol, 21(15) 1259-1267 (2011)
Eric A. Galburt, Juan Parrondo, Stephan W. Grill
RNA polymerase pushing.
Biophys Chem, 157(1-3) 43-47 (2011)
Martin P Stewart, Yusuke Toyoda, Anthony A. Hyman, Daniel J. Müller
Force probing cell shape changes to molecular resolution.
Trends Biochem Sci, 36(8) 444-450 (2011)
Anthony A. Hyman, Clifford Brangwynne
Beyond stereospecificity: liquids and mesoscale organization of cytoplasm.
Dev Cell, 21(1) 14-16 (2011)
Dominic Rose, Michael Hiller, Katharina Schutt, Jörg Hackermüller, Rolf Backofen, Peter F Stadler
Computational discovery of human coding and non-coding transcripts with conserved splice sites.
Bioinformatics, 27(14) 1894-1900 (2011)
Mohammad Shorif Uddin, Hwee Kuan Lee, Stephan Preibisch, Pavel Tomancak
Restoration of Uneven Illumination in Light Sheet Microscopy Images.
Microsc microanal, 17(4) 607-613 (2011)
Jonathon Howard, Stephan W. Grill, Justin Bois
Turing's next steps: the mechanochemical basis of morphogenesis.
Nat Rev Mol Cell Biol, 12(6) 400-406 (2011)
Hanchuan Peng, Phuong Chung, Fuhui Long, Lei Qu, Arnim Jenett, Andrew M Seeds, Eugene W Myers, Julie H Simpson
BrainAligner: 3D registration atlases of Drosophila brains.
Nat Methods, 8(6) 493-500 (2011)
Nathan Goehring, Carsten Hoege, Stephan W. Grill, Anthony A. Hyman
PAR proteins diffuse freely across the anterior-posterior boundary in polarized C. elegans embryos.
J Cell Biol, 193(3) 583-594 (2011)
Alex T. Kalinka, Pavel Tomancak
linkcomm: an R package for the generation, visualization, and analysis of link communities in networks of arbitrary size and type.
Bioinformatics, 27(14) 2011-2012 (2011)
Daniela Roellig, Luis G. Morelli, Saul Ares, Frank Jülicher, Andrew C. Oates
SnapShot: the segmentation clock
Cell, 145(5) Art. No. 800-800.e1 (2011)
Rebecca A Green, Huey-Ling Kao, Anjon Audhya, Swathi Arur, Jonathan R Mayers, Heidi N Fridolfsson, Monty Schulman, Siegfried Schloissnig, Sherry Niessen, Kimberley Laband, Shaohe Wang, Daniel A Starr, Anthony A. Hyman, Tim Schedl, Arshad Desai, Fabio Piano, Kristin C. Gunsalus, Karen Oegema
A high-resolution C. elegans essential gene network based on phenotypic profiling of a complex tissue.
Cell, 145(3) 470-482 (2011)
Lis Jakobsen, Katja Vanselow, Marie Skogs, Yusuke Toyoda, Emma Lundberg, Ina Poser, Lasse G Falkenby, Martin Bennetzen, Jens Westendorf, Erich A Nigg, Mathias Uhlen, Anthony A. Hyman, Jens S Andersen
Novel asymmetrically localizing components of human centrosomes identified by complementary proteomics methods.
EMBO J, 30(8) 1520-1535 (2011)
Anthony A. Hyman
Q & A Tony Hyman
Curr Biol, 21(7) 240-242 (2011)
Marcus Jahnel, Martin Behrndt, Anita Jannasch, Erik Schäffer, Stephan W. Grill
Measuring the complete force field of an optical trap.
Opt Lett, 36(7) 1260-1262 (2011)
Clifford Brangwynne, Timothy J. Mitchison, Anthony A. Hyman
Active liquid-like behavior of nucleoli determines their size and shape in Xenopus laevis oocytes.
Proc Natl Acad Sci U.S.A., 108(11) 4334-4339 (2011)
Stefanie Redemann, Siegfried Schloissnig, Susanne Ernst, Andrei I. Pozniakovsky, Swathi Ayloo, Anthony A. Hyman, Henrik Bringmann
Codon adaptation-based control of protein expression in C. elegans.
Nat Methods, 8(3) 250-252 (2011)
Nicolas T Chartier, Diana P Salazar Ospina, Laura Benkemoun, Mirjam Mayer, Stephan W. Grill, Amy Shaub Maddox, Jean-Claude Labbé
PAR-4/LKB1 Mobilizes Nonmuscle Myosin through Anillin to Regulate C. elegans Embryonic Polarization and Cytokinesis.
Curr Biol, 21(4) 259-269 (2011)
Per Widlund, Jeffrey H. Stear, Andrei I. Pozniakovsky, Marija Zanic, Simone Reber, Gary J. Brouhard, Anthony A. Hyman, Jonathon Howard
XMAP215 polymerase activity is built by combining multiple tubulin-binding TOG domains and a basic lattice-binding region.
Proc Natl Acad Sci U.S.A., 108(7) 2741-2746 (2011)
Benoit Aigouy, Raphael Etournay, Andreas Sagner, Douglas B Staple, Reza Farhadifar, Jens-Christian Röper, Suzanne Eaton, Frank Jülicher
[Cell flow reorients planar polarity in the wing of Drosophila]
Med Sci (Paris), 27(2) 117-119 (2011)
Frank Schnütgen, Franziska Ehrmann, Ina Poser, Nina C Hubner, Jens Hansen, Thomas Floss, Ingrid deVries, Wolfgang Wurst, Anthony A. Hyman, Matthias Mann, Harald von Melchner
Resources for proteomics in mouse embryonic stem cells.
Nat Methods, 8(2) 103-104 (2011)
Wei Niu, Zhi John Lu, Mei Zhong, Mihail Sarov, James T Murray, Cathleen M Brdlik, Judith Janette, Chao Chen, Pedro Alves, Elicia A. Preston, Cindie Slightam, Lixia Jiang, Anthony A. Hyman, Stuart K Kim, Robert H Waterston, Mark Gerstein, Michael Snyder, Valerie Reinke
Diverse transcription factor binding features revealed by genome-wide ChIP-seq in C. elegans.
Genome Res, 21(2) 245-254 (2011)
Justin Bois, Frank Jülicher, Stephan W. Grill
Pattern formation in active fluids
Phys Rev Lett, 106(2) Art. No. 028103 (2011)
Martin P Stewart, Jonne H. Helenius, Yusuke Toyoda, Subramanian Ramanathan, Daniel J. Müller, Anthony A. Hyman
Hydrostatic pressure and the actomyosin cortex drive mitotic cell rounding.
Nature, 469(7329) 226-230 (2011)
Moritz Kreysing
Optics of the retina: novel tools new insights
Ph.D. Thesis,University of Cambridge, Cambridge, United Kingdom (2011)
Radoslaw K Ejsmont, Maria Bogdanzaliewa, Kamil A Lipinski, Pavel Tomancak
Production of fosmid genomic libraries optimized for liquid culture recombineering and cross-species transgenesis.
Methods Mol Biol, 772 423-443 (2011)
Christian L. Müller, Ivo F. Sbalzarini
Global characterization of the CEC 2005 fitness landscapes using fitness-distance analysis
In: Proc. EvoStar (2011) Leture Notes in Computer Science, New York, Springer (2011), 294-303
Christian L. Müller, Ivo F. Sbalzarini
A conjecture about an upper bound of the RMSD between linear chains
In: Proc. EuroCG (2011), Brussels, EuroCG (2011), 31-34
Christian L. Müller, Ivo F. Sbalzarini
Gaussian Adaptation for robust design centering
In: Proc. EuroGen (2011), Italy, CIRA (2011), 736-742
Gregory Paul, Janick Cardinale, Ivo F. Sbalzarini
An alternating split Bregman algorithm for multi-region segmentation
In: Proc. 45th IEEE Asilomar Conf. Signals, Systems, and Computers (2011), Piscataway, N.J., IEEE (2011), 426-430
Ömer Demirel, Birte Schrader, Ivo F. Sbalzarini
A parallel particle method for solving the EEG source localization forward problem
In: Proc. 6th Intl. Symp. Health Informatics and Bioinformatics (HIBIT) (2011), Piscataway, N.J., IEEE (2011), 154-158
Gregory Paul, Christian L. Müller, Ivo F. Sbalzarini
Sensitivity analysis from evolutionary algorithm search paths
In: Proc. EVOLVE (2011), Luxembourg, EVOLVE (2011), 1-4
Hanchuan Peng, Fuhui Long, Eugene W Myers
Automatic 3D neuron tracing using all-path pruning
Bioinformatics, 27 239-247 (2011)
Rajesh Ramaswamy, Ivo F. Sbalzarini
A partial-propensity formulation of the stochastic simulation algorithm for chemical reaction networks with delays
J Chem Phys, 134(1) Art. No. 014106 (2011)
Rajesh Ramaswamy, Ivo F. Sbalzarini
Intrinsic noise alters the frequency spectrum of mesoscopic oscillatory chemical reaction systems
Sci Rep, 1 Art. No. 154 (2011)
Radoslaw K Ejsmont, Peter Ahlfeld, Andrei I. Pozniakovsky, A Francis Stewart, Pavel Tomancak, Mihail Sarov
Recombination-mediated genetic engineering of large genomic DNA transgenes.
Methods Mol Biol, 772 445-458 (2011)
Wayne Pereanu, Parvez Ahammad, Arnim Jenett, Eugene W Myers, James W Truman
Investigating Neural Circuitry Using a Compartment- Level Connectivity Map of the Adult Drosophila Brain
PLoS Biol, 9(1) 1-20 (2011)
Rajesh Ramaswamy, Ivo F. Sbalzarini, Nélido González-Segredo
Noise-induced modulation of the relaxation kinetics around a non-equilibrium steady state of non-linear chemical reaction networks
PLoS ONE, 6(1) Art. No. e16045 (2011)
Maria L Begasse, Anthony A. Hyman
The first cell cycle of the Caenorhabditis elegans embryo: spatial and temporal control of an asymmetric cell division.
In: Cell Cycle in Development. Results and Problems in Cell Differentiation, 53.,Berlin;Heidelberg,Springer (2011),109-133 Ch. 6
Zlatko Smole, Nela Nikolic, Fran Supek, Tomislav Šmuc, Ivo F. Sbalzarini, Anita Krisko
Proteome sequence features carry signatures of the environmental niche of prokaryotes.
BMC Evol Biol, 11 26-26 (2011)
Danming Tang, Yi Xiang, Stefano de Renzis, Jochen Rink, Gen Zheng, Marino Zerial, Yanzhuang Wang
The ubiquitin ligase HACE1 regulates Golgi membrane dynamics during the cell cycle.
Nat Commun, 2 Art. No. 501 (2011)
Christopher Gell, Claire Friel, Barbara Borgonovo, David N. Drechsel, Anthony A. Hyman, Jonathon Howard
Purification of tubulin from porcine brain.
Methods Mol Biol, 777 15-28 (2011)
Andreas Ettinger, Michaela Wilsch-Bräuninger, Anne-Marie Marzesco, Marc Bickle, Annett Lohmann, Zoltan Maliga, Jana Karbanová, Denis Corbeil, Anthony A. Hyman, Wieland B. Huttner
Proliferating versus differentiating stem and cancer cells exhibit distinct midbody-release behaviour.
Nat Commun, 2 Art. No. 503 (2011)

2010

Mark Gerstein, Zhi John Lu, Eric L. Van Nostrand, Chao Cheng, Bradley I. Arshinoff, Tao Liu, Kevin Y. Yip, Rebecca Robilotto, Andreas Rechtsteiner, Kohta Ikegami, Pedro Alves, Aurelien Chateigner, Marc Perry, Mitzi Morris, Raymond Auerbach, Xin Feng, Jing Leng, Anne Vielle, Wei Niu, Kahn Rhrissorrakrai, Ashish Agarwal, Roger P. Alexander, Galt Barber, Cathleen M Brdlik, Jennifer Brennan, Jeremy Jean Brouillet, Adrian Carr, Ming-Sin Cheung, Hiram Clawson, Sergio Contrino, Luke O. Dannenberg, Abby F. Dernburg, Arshad Desai, Lindsay Dick, Andréa Dosé, Jiang Du, Thea Egelhofer, Sevinc Ercan, Ghia Euskirchen, Brent Ewing, Elise A. Feingold, Reto Gassmann, Peter J. Good, Phil Green, Francois Gullier, Michelle Gutwein, Mark S. Guyer, Lukas Habegger, Ting Han, Jorja G. Henikoff, Stefan R. Henz, Angie Hinrichs, Heather Holster, Anthony A. Hyman, A. Leo Iniguez, Judith Janette, Morten Jensen, Masaomi Kato, W. James Kent, Ellen Kephart, Vishal Khivansara, Ekta Khurana, John K. Kim, Paulina Kolasinska-Zwierz, Eric C. Lai, Isabel Latorre, Amber Leahey, Suzanna E Lewis, Paul Lloyd, Lucas Lochovsky, Rebecca F. Lowdon, Yaniv Lubling, Rachel Lyne, Michael MacCoss, Sebastian D. Mackowiak, Marco Mangone, Sheldon McKay, Desirea Mecenas, Gennifer Merrihew, David M. Miller, Andrew Muroyama, John I. Murray, Siew-Loon Ooi, Hoang Pham, Taryn Phippen, Elicia A. Preston, Nikolaus Rajewski, Gunnar Rätsch, Heidi Rosenbaum, Joel Rozowksy, Kim Rutherford, Peter Ruzanov, Mihail Sarov, Rajkumar Sasidharan, Andrea Sboner, Paul Scheid, Eran Segal, Hyunjin Shin, Chong Shou, Frank J. Slack, Cindie Slightam, Richard Smith, William C. Spencer, E. O. Stinson, Scott Taing, Teruaki Takasaki, Dionne Vafeados, Ksenia Voronina, Guilin Wang, Nicole L. Washington, Christina M. Whittle, Beijing Wu, Koon-Kiu Yan, Georg Zeller, Zheng Zha, Mei Zhong, Xingliang Zhou, Julie Ahringer, Susan Strome, Kristin C. Gunsalus, Gos Micklem, X. Shirley Liu, Valerie Reinke, Stuart K Kim, LaDeana W Hillier, Steven Henikoff, Fabio Piano, Michael Snyder, Lincoln Stein, Jason D. Lieb, Robert H Waterston
Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project
Science, 330(6012) 1775-1787 (2010)
Alex T. Kalinka, Karolina M Varga, Dave T. Gerrard, Stephan Preibisch, David L. Corcoran, Julia Jarrells, Uwe Ohler, Casey M. Bergman, Pavel Tomancak
Gene expression divergence recapitulates the developmental hourglass model.
Nature, 468(7325) 811-814 (2010)
Javier G Orlandi, Carles Blanch-Mercader, Jan Brugués, Jaume Casademunt
Cooperativity of self-organized Brownian motors pulling on soft cargoes.
Phys Rev E, 82(6 Pt 1) 61903-61903 (2010)
Aristides B. Arrenberg, Didier Y.R. Stainier, Herwig Baier, Jan Huisken
Optogenetic control of cardiac function.
Science, 330(6006) 971-974 (2010)
Benoît Maugis, Jan Brugués, Pierre Nassoy, Nancy Guillen, Pierre Sens, François Amblard
Dynamic instability of the intracellular pressure drives bleb-based motility.
J Cell Sci, 123(Pt 22) 3884-3892 (2010)
M. Bergdorf, Ivo F. Sbalzarini, Petros Koumoutsakos
A Lagrangian particle method for reaction-diffusion systems on deforming surfaces.
J Math Biol, 61(5) 649-663 (2010)
Jiandong Liu, Michael Bressan, David Hassel, Jan Huisken, David Staudt, Kazu Kikuchi, Kenneth D Poss, Takashi Mikawa, Didier Y.R. Stainier
A dual role for ErbB2 signaling in cardiac trabeculation.
Development, 137(22) 3867-3875 (2010)
Tomoko Nishiyama, Rene Ladurner, Julia Schmitz, Emanuel Kreidl, Alexander Schleiffer, Venugopal Bhaskara, Masashige Bando, Katsuhiko Shirahige, Anthony A. Hyman, Karl Mechtler, Jan-Michael Peters
Sororin mediates sister chromatid cohesion by antagonizing Wapl.
Cell, 143(5) 737-749 (2010)
Stephan W. Grill
Forced to be unequal
Science, 330(6004) 597-598 (2010)
Nathan W. Goehring, Debanjan Chowdhury, Anthony A. Hyman, Stephan W. Grill
FRAP analysis of membrane-associated proteins: lateral diffusion and membrane-cytoplasmic exchange
Biophys J, 99(8) 2443-2452 (2010)
Abigail Klopper, Gabriel Krens, Stephan W. Grill, Carl-Philipp Heisenberg
Finite-size corrections to scaling behavior in sorted cell aggregates.
Eur Phys J E Soft Matter, 33(2) 99-103 (2010)
Douglas B Staple, Reza Farhadifar, Jens-Christian Röper, Benoit Aigouy, Suzanne Eaton, Frank Jülicher
Mechanics and remodelling of cell packings in epithelia.
Eur Phys J E Soft Matter, 33(2) 117-127 (2010)
Michel Bagnat, Adam Navis, Sara Herbstreith, Koroboshka Brand-Arzamendi, Silvia Curado, Sherif Gabriel, Keith Mostov, Jan Huisken, Didier Y.R. Stainier
Cse1l Is a Negative Regulator of CFTR-Dependent Fluid Secretion.
Curr Biol, 20(20) 1840-1845 (2010)
Albert Cardona, Stephan Saalfeld, Stephan Preibisch, Benjamin Schmid, Anchi Cheng, Jim Pulokas, Pavel Tomancák, Volker Hartenstein
An integrated micro- and macroarchitectural analysis of the Drosophila brain by computer-assisted serial section electron microscopy.
PLoS Biol, 8(10) Art. No. e1000502 (2010)
Mirjam Mayer, Martin Depken, Justin Bois, Frank Jülicher, Stephan W. Grill
Anisotropies in cortical tension reveal the physical basis of polarizing cortical flows.
Nature, 467(7315) 617-621 (2010)
Jun Xie, Ting Zhao, Tzumin Lee, Eugene Myers, Hanchuan Peng
Automatic neuron tracing in volumetric microscopy images with anisotropic path searching.
In: Medical image computing and computer-assisted intervention - MICCAI 2010 : 13th international conference, Beijing, China, September 20-24, 2010; proceedings, Part II (2010)(Eds.) Tianzi Jiang, Nassir Navab, Josien P. W. Pluim, Max A. Viergever Lecture notes in computer science ; 6362, Dordrecht, Springer (2010), 472-479
Cecile Leduc, Nenad Pavin, Frank Jülicher, Stefan Diez
Collective Behavior of Antagonistically Acting Kinesin-1 Motors
Phys Rev Lett, 105(12) Art. No. 128103 (2010)
Michiel Vermeulen, H Christian Eberl, Filomena Matarese, Hendrik Marks, Sergei Denissov, Falk Butter, Kenneth K Lee, Jesper V Olsen, Anthony A. Hyman, Hendrik G Stunnenberg, Matthias Mann
Quantitative interaction proteomics and genome-wide profiling of epigenetic histone marks and their readers.
Cell, 142(6) 967-980 (2010)
Benoit Aigouy, Reza Farhadifar, Douglas B Staple, Andreas Sagner, Jens-Christian Röper, Frank Jülicher, Suzanne Eaton
Cell flow reorients the axis of planar polarity in the wing epithelium of Drosophila.
Cell, 142(5) 773-786 (2010)
Leann L Norman, Jan Brugués, Kheya Sengupta, Pierre Sens, Helim Aranda-Espinoza
Cell blebbing and membrane area homeostasis in spreading and retracting cells.
Biophys J, 99(6) 1726-1733 (2010)
Michael H A Schmitz, Michael Held, Veerle Janssens, James R A Hutchins, Otto Hudecz, Elitsa Ivanova, Jozef Goris, Laura Trinkle-Mulcahy, Angus I Lamond, Ina Poser, Anthony A. Hyman, Karl Mechtler, Jan-Michael Peters, Daniel W Gerlich
Live-cell imaging RNAi screen identifies PP2A-B55alpha and importin-beta1 as key mitotic exit regulators in human cells.
Nat Cell Biol, 12(9) 886-893 (2010)
Moritz Kreysing, Lars Boyde, Jochen Guck, Kevin J Chalut
Physical insight into light scattering by photoreceptor cell nuclei.
Opt Lett, 35(15) 2639-2641 (2010)
Jan Brugués, Benoît Maugis, Jaume Casademunt, Pierre Nassoy, François Amblard, Pierre Sens
Dynamical organization of the cytoskeletal cortex probed by micropipette aspiration.
Proc Natl Acad Sci U.S.A., 107(35) 15415-15420 (2010)
Emmanuel G. Reynaud, Pavel Tomancák
Meeting report: First light sheet based fluorescence microscopy workshop.
Biotechnol J, 5(8) 798-804 (2010)
Stefanie Redemann, Jacques Pecreaux, Nathan W. Goehring, Khaled Khairy, Ernst H K Stelzer, Anthony A. Hyman, Jonathon Howard
Membrane invaginations reveal cortical sites that pull on mitotic spindles in one-cell C. elegans embryos.
PLoS ONE, 5(8) Art. No. e12301 (2010)
Manonmani Arunachalam, Karthik Jayasurya, Pavel Tomancák, Uwe Ohler
An alignment-free method to identify candidate orthologous enhancers in multiple Drosophila genomes.
Bioinformatics, 26(17) 2109-2115 (2010)
Stephan Saalfeld, Albert Cardona, Volker Hartenstein, Pavel Tomancák
As-rigid-as-possible mosaicking and serial section registration of large ssTEM datasets
Bioinformatics, 26(12) 57-63 (2010)
Giovanna Mottola, Anne-Kathrin Classen, Marcos González-Gaitán, Suzanne Eaton, Marino Zerial
A novel function for the Rab5 effector Rabenosyn-5 in planar cell polarity.
Development, 137(14) 2353-2364 (2010)
Carsten Hoege, Alexandru T. Constantinescu, Anne Schwager, Nathan W. Goehring, Prateek Kumar, Anthony A. Hyman
LGL can partition the cortex of one-cell Caenorhabditis elegans embryos into two domains.
Curr Biol, 20(14) 1296-1303 (2010)
Leah Herrgen, Saul Ares, Luis G. Morelli, Christian Schröter, Frank Jülicher, Andrew C. Oates
Intercellular coupling regulates the period of the segmentation clock.
Curr Biol, 20(14) 1244-1253 (2010)
Akin Akinc, William Querbes, Soma De, June Qin, Maria Frank-Kamenetsky, K Narayanannair Jayaprakash, Muthusamy Jayaraman, Kallanthottathil G Rajeev, William L Cantley, J Robert Dorkin, James S Butler, Liuliang Qin, Timothy Racie, Andrew Sprague, Eugenio Fava, Anja Zeigerer, Michael J Hope, Marino Zerial, Dinah W Y Sah, Kevin Fitzgerald, Mark A Tracy, Muthiah Manoharan, Victor Koteliansky, Antonin de Fougerolles, Martin A Maier
Targeted delivery of RNAi therapeutics with endogenous and exogenous ligand-based mechanisms.
Mol Ther, 18(7) 1357-1364 (2010)
Steffen Jaensch, Markus Decker, Anthony A. Hyman, Eugene Myers
Automated tracking and analysis of centrosomes in early Caenorhabditis elegans embryos
Bioinformatics, 26(12) 13-20 (2010)
Hesso Farhan, Markus W Wendeler, Sandra Mitrovic, Eugenio Fava, Yael Silberberg, Roded Sharan, Marino Zerial, Hans-Peter Hauri
MAPK signaling to the early secretory pathway revealed by kinase/phosphatase functional screening.
J Cell Biol, 189(6) 997-1011 (2010)
Stephan Preibisch, Stephan Saalfeld, Johannes Schindelin, Pavel Tomancák
Software for bead-based registration of selective plane illumination microscopy data
Nat Methods, 7(6) 418-419 (2010)
Nina C. Hubner, Alexander W. Bird, Jürgen Cox, Bianca Splettstoesser, Peter Bandilla, Ina Poser, Anthony A. Hyman, Matthias Mann
Quantitative proteomics combined with BAC TransgeneOmics reveals in vivo protein interactions.
J Cell Biol, 189(4) 739-754 (2010)
Cory Y McLean, Dave Bristor, Michael Hiller, Shoa L Clarke, Bruce T Schaar, Craig B Lowe, Aaron M Wenger, Gill Bejerano
GREAT improves functional interpretation of cis-regulatory regions.
Nat Biotechnol, 28(5) 495-501 (2010)
Christian Schenk, Henrik Bringmann, Anthony A. Hyman, Carrie R. Cowan
Cortical domain correction repositions the polarity boundary to match the cytokinesis furrow in C. elegans embryos.
Development, 137(10) 1743-1753 (2010)
Zhaiyi Zhang, Dominik Theler, Katarzyna H Kaminska, Michael Hiller, Pierre de la Grange, Rainer Pudimat, Ilona Rafalska, Bettina Heinrich, Janusz M Bujnicki, Frédéric H-T Allain, Stefan Stamm
The YTH domain is a novel RNA binding domain.
J Biol Chem, 285(19) 14701-14710 (2010)
Pavel Tomancák, Uwe Ohler
Mapping the complexity of transcription control in higher eukaryotes
Genome Biol, 11(4) Art. No. 115 (2010)
Sven Vogel, Nenad Pavin, Nicola Maghelli, Frank Jülicher, Iva M. Tolic-Norrelykke
Microtubules and motor proteins: Mechanically regulated self-organization in vivo
Eur Phys J Spec Top, 178(1) 57-69 (2010)
Benjamin Friedrich, Ingmar H Riedel-Kruse, Jonathon Howard, Frank Jülicher
High-precision tracking of sperm swimming fine structure provides strong test of resistive force theory.
J Exp Biol, 213(Pt 8) 1226-1234 (2010)
Hanchuan Peng, Zongcai Ruan, Fuhui Long, Julie H Simpson, Eugene W Myers
V3D enables real-time 3D visualization and quantitative analysis of large-scale biological image data sets.
Nat Biotechnol, 28(4) 348-353 (2010)
James R A Hutchins, Yusuke Toyoda, Björn Hegemann, Ina Poser, Jean-Karim Hériché, Martina M Sykora, Martina Augsburg, Otto Hudecz, Bettina A Buschhorn, Jutta Bulkescher, Christian Conrad, David Comartin, Alexander Schleiffer, Mihail Sarov, Andrei I. Pozniakovsky, Mikolaj Slabicki, Siegfried Schloissnig, Ines Steinmacher, Marit Leuschner, Andrea Ssykor, Steffen Lawo, Laurence Pelletier, Holger Stark, Kim Nasmyth, Jan Ellenberg, Richard Durbin, Frank Buchholz, Karl Mechtler, Anthony A. Hyman, Jan-Michael Peters
Systematic analysis of human protein complexes identifies chromosome segregation proteins.
Science, 328(5978) 593-599 (2010)
Dmitry Poteryaev, Sunando Datta, Karin Ackema, Marino Zerial, Anne Spang
Identification of the switch in early-to-late endosome transition.
Cell, 141(3) 497-508 (2010)
Beate Neumann, Thomas Walter, Jean-Karim Hériché, Jutta Bulkescher, Holger Erfle, Christian Conrad, Phill Rogers, Ina Poser, Michael Held, Urban Liebel, Cihan Cetin, Frank Sieckmann, Gregoire Pau, Rolf Kabbe, Annelie Wünsche, Venkata Satagopam, Michael H A Schmitz, Catherine Chapuis, Daniel W Gerlich, Reinhard Schneider, Roland Eils, Wolfgang Huber, Jan-Michael Peters, Anthony A. Hyman, Richard Durbin, Rainer Pepperkok, Jan Ellenberg
Phenotypic profiling of the human genome by time-lapse microscopy reveals cell division genes.
Nature, 464(7289) 721-727 (2010)
Abigail Klopper, Justin Bois, Stephan W. Grill
Influence of secondary structure on recovery from pauses during early stages of RNA transcription.
Phys Rev E, 81(3 Pt 1) Art. No. 030904 (2010)
Claudio Collinet, Martin Stöter, Charles R. Bradshaw, Nikolay Samusik, Jochen Rink, Denise Kenski, Bianca Habermann, Frank Buchholz, Robert Henschel, Matthias S Mueller, Wolfgang E Nagel, Eugenio Fava, Yannis Kalaidzidis, Marino Zerial
Systems survey of endocytosis by multiparametric image analysis.
Nature, 464(7286) 243-249 (2010)
Thomas Walter, David W Shattuck, Richard Baldock, Mark E Bastin, Anne E Carpenter, Suzanna Duce, Jan Ellenberg, Adam Fraser, Nicholas Hamilton, Steve Pieper, Mark A Ragan, Jurgen E Schneider, Pavel Tomancák, Jean-Karim Hériché
Visualization of image data from cells to organisms
Nat Methods, 7(3s) 26-41 (2010)
Jan Brugués, Daniel Needleman
Nonequilibrium fluctuations in metaphase spindles: polarized light microscopy, image registration, and correlation functions
Proc SPIE, 7618 Art. No. 76180L (2010)
Mei Zhong, Wei Niu, Zhi John Lu, Mihail Sarov, James T Murray, Judith Janette, Debasish Raha, Karyn L Sheaffer, Hugo Y K Lam, Elicia A. Preston, Cindie Slightam, LaDeana W Hillier, Trisha Brock, Ashish Agarwal, Raymond Auerbach, Anthony A. Hyman, Mark Gerstein, Susan E Mango, Stuart K Kim, Robert H Waterston, Valerie Reinke, Michael Snyder
Genome-wide identification of binding sites defines distinct functions for Caenorhabditis elegans PHA-4/FOXA in development and environmental response.
PLoS Genet, 6(2) Art. No. e1000848 (2010)
Garrett Greenan, Clifford Brangwynne, Steffen Jaensch, Joebin Gharakhani, Frank Jülicher, Anthony A. Hyman
Centrosome size sets mitotic spindle length in Caenorhabditis elegans embryos.
Curr Biol, 20(4) 353-358 (2010)
Daniel T O'Connor, Nathan G Clack, Daniel Huber, Takaki Komiyama, Eugene W Myers, Karel Svoboda
Vibrissa-based object localization in head-fixed mice.
J Neurosci, 30(5) 1947-1967 (2010)
Shing Chun Benny Lam, Zongcai Ruan, Ting Zhao, Fuhui Long, Arnim Jenett, Julie Simpson, Eugene W Myers, Hanchuan Peng
Segmentation of center brains and optic lobes in 3D confocal images of adult fruit fly brains.
Methods, 50(2) 63-69 (2010)
Christoph C. H. Langer, Radoslaw K Ejsmont, Cornelia Schönbauer, Frank Schnorrer, Pavel Tomancák
In Vivo RNAi Rescue in Drosophila melanogaster with Genomic Transgenes from Drosophila pseudoobscura
PLoS ONE, 5(1) Art. No. e8928 (2010)
Ivo F. Sbalzarini
Abstractions and middleware for petascale computing and beyond
Intl J Dist Sys & Technol, 1(2) 40-56 (2010)
Rajesh Ramaswamy, Ivo F. Sbalzarini
Fast exact stochastic simulation algorithms using partial propensities
In: Proc. ICNAAM (2010), Melville, N.Y., AIP (2010), 1338-1341
Christian L. Müller, Ivo F. Sbalzarini
Gaussian adaptation revisited — an entropic view on covariance matrix adaptation
In: Proc. EvoStar (2010) Lecture Notes in Computer Science, Berlin;Heidelberg, Springer (2010), 432-441
Christian L. Müller, Ivo F. Sbalzarini
Gaussian Adaptation as a unifying framework for continuous black-box optimization and adaptive Monte Carlo sampling
In: Proc. IEEE Congress on Evolutionary Computation (CEC) (2010), Piscataway, N.J., IEEE (2010), 2594-2601
Birte Schrader, Sylvain Reboux, Ivo F. Sbalzarini
Discretization-Corrected PSE Operators for Particle Methods
In: Proc. 8th Euromech Fluid Mechanics Conference (EFMC8) (2010), EuroMech EFMC (2010), 1-1
Jo A. Helmuth, Gregory Paul, Ivo F. Sbalzarini
Beyond co-localization: inferring spatial interactions between sub-cellular structures from microscopy images
BMC Bioinformatics, 11 Art. No. 372 (2010)
Rajesh Ramaswamy, Ivo F. Sbalzarini
A partial-propensity variant of the composition-rejection stochastic simulation algorithm for chemical reaction networks
J Chem Phys, 132(4) Art. No. 044102 (2010)
Birte Schrader, Sylvain Reboux, Ivo F. Sbalzarini
Discretization correction of general integral PSE Operators for particle methods
J Comput Phys, 229 4159-4182 (2010)
Eldar Giladi, John Healy, Eugene W Myers, Chris Hart, Philipp Kapranov, Doron Lipson, Steve Roels, Edward Thayer, Stan Letovsky
Error Tolerant Indexing and Alignment of Short Reads with Covering Template Families
J Comput Biol, 17(10) 1279-1293 (2010)
Stephan Preibisch, Pavel Tomancák, Stephan Saalfeld
Into ImgLib - Generic Image Processing in Java
In: Proceedings of ImageJ User and Developer Conference (2010), Amsterdam, Netherlands, Academic Press (2010), 1-1
Omar Awile, Anita Krisko, Ivo F. Sbalzarini, Bojan Zagrovic
Intrinsically disordered regions may lower the hydration free energy in proteins: a case study of nudix hydrolase in the bacterium Deinococcus radiodurans.
PLoS Comput Biol, 6(7) 1000854-1000854 (2010)
Omar Awile, Ömer Demirel, Ivo F. Sbalzarini
Toward an Object-Oriented Core of the PPM Library
In: Numerical Analysis and Applied Mathematics : International Conference on Numerical Analysis and Applied Mathematics ; Rhodes, Greece, 19 - 25 September 2010 ; ICNAAM 2010 (2010)(Eds.) Theodore E. Simos AIP conference proceedings ; 1281, Melville, N.Y., AIP (2010), 1313-1316
Anton A. Polyansky, Rajesh Ramaswamy, Pavel E. Volynsky, Ivo F. Sbalzarini, Siewert J. Marrink, Roman G. Efremov
Antimicrobial peptides induce growth of phosphatidylglycerol domains in a model bacterial membrane
J Phys Chem Lett, 1 3108-3111 (2010)
Rileen Sinha, Thorsten Lenser, Niels Jahn, Ulrike Gausmann, Swetlana Friedel, Karol Szafranski, Klaus Huse, Philip Rosenstiel, Jochen Hampe, Stefan Schuster, Michael Hiller, Rolf Backofen, Matthias Platzer
TassDB2 - A comprehensive database of subtle alternative splicing events.
BMC Bioinformatics, 11 Art. No. 216 (2010)

2009

Nicholas Licata, Stephan W. Grill
The first-passage problem for diffusion through a cylindrical pore with sticky walls.
Eur Phys J E Soft Matter, 30(4) 439-447 (2009)
Albert Cardona, Stephan Saalfeld, Pavel Tomancák, Volker Hartenstein
Drosophila Brain Development: Closing the Gap between a Macroarchitectural and Microarchitectural Approach.
Cold Spring Harb Symp Quant Biol, 74 235-248 (2009)
Katharina Landsberg, Reza Farhadifar, Jonas Ranft, Daiki Umetsu, Thomas Widmann, Thomas Bittig, Amani Said, Frank Jülicher, Christian Dahmann
Increased cell bond tension governs cell sorting at the Drosophila anteroposterior compartment boundary.
Curr Biol, 19(22) 1950-1955 (2009)
Shane P Herbert, Jan Huisken, Tyson N Kim, Morri E Feldman, Benjamin T Houseman, Rong A Wang, Kevan M Shokat, Didier Y.R. Stainier
Arterial-venous segregation by selective cell sprouting: an alternative mode of blood vessel formation.
Science, 326(5950) 294-298 (2009)
Dirk Helbing, Andreas Deutsch, Stefan Diez, Karsten Peters, Yannis Kalaidzidis, Kathrin Padberg-Gehle, Stefan Lämmer, Anders Johansson, Georg Breier, Frank Schulze, Marino Zerial
Biologistics and the struggle for efficiency: concepts and perspectives
Adv complex systems, 12(6) 533-548 (2009)
Xiao Liu, Fuhui Long, Hanchuan Peng, Sarah J Aerni, Min Jiang, Adolfo Sánchez-Blanco, John I Murray, Elicia A. Preston, Barbara Mericle, Serafim Batzoglou, Eugene W Myers, Stuart K Kim
Analysis of cell fate from single-cell gene expression profiles in C. elegans.
Cell, 139(3) 623-633 (2009)
Fuhui Long, Hanchuan Peng, Xiao Liu, Stuart K Kim, Eugene Myers
A 3D digital atlas of C. elegans and its application to single-cell analyses.
Nat Methods, 6(9) 667-672 (2009)
Stefano Maffini, Ana R R Maia, Amity L Manning, Zoltan Maliga, Ana L Pereira, Magno Junqueira, Andrej Shevchenko, Anthony A. Hyman, John R. Yates, Niels Galjart, Duane A Compton, Helder Maiato
Motor-independent targeting of CLASPs to kinetochores by CENP-E promotes microtubule turnover and poleward flux.
Curr Biol, 19(18) 1566-1572 (2009)
Stephan Saalfeld, Albert Cardona, Volker Hartenstein, Pavel Tomancák
CATMAID: collaborative annotation toolkit for massive amounts of image data.
Bioinformatics, 25(15) 1984-1986 (2009)
Jonathon Howard, Anthony A. Hyman
Growth, fluctuation and switching at microtubule plus ends.
Nat Rev Mol Cell Biol, 10(8) 569-574 (2009)
Eric A. Galburt, Stephan W. Grill, Carlos Bustamante
Single molecule transcription elongation.
Methods, 48(4) 323-332 (2009)
Jo A. Helmuth, C J Burckhardt, U F Greber, Ivo F. Sbalzarini
Shape reconstruction of subcellular structures from live cell fluorescence microscopy images
J Struct Biol, 167(1) 1-10 (2009)
Michael Hiller, Sven Findeiss, Sandro Lein, Manja Marz, Claudia Nickel, Dominic Rose, Christine Schulz, Rolf Backofen, Sonja J Prohaska, Gunter Reuter, Peter F Stadler
Conserved introns reveal novel transcripts in Drosophila melanogaster.
Genome Res, 19(7) 1289-1300 (2009)
Jan Huisken, Didier Y.R. Stainier
Selective plane illumination microscopy techniques in developmental biology.
Development, 136(12) 1963-1975 (2009)
Clifford Brangwynne, Christian R. Eckmann, David S Courson, Agata Rybarska, Carsten Hoege, Joebin Gharakhani, Frank Jülicher, Anthony A. Hyman
Germline P granules are liquid droplets that localize by controlled dissolution/condensation.
Science, 324(5935) 1729-1732 (2009)
Stephan Preibisch, Stephan Saalfeld, Pavel Tomancák
Globally optimal stitching of tiled 3D microscopic image acquisitions.
Bioinformatics, 25(11) 1463-1465 (2009)
Rajesh Ramaswamy, Nélido González-Segredo, Ivo F. Sbalzarini
A new class of highly efficient exact stochastic simulation algorithms for chemical reaction networks
J Chem Phys, 130(24) Art. No. 244104 (2009)
Takeshi Ohya, Marta Miaczynska, Uenal Coskun, Barbara Lommer, Anja Runge, David N. Drechsel, Yannis Kalaidzidis, Marino Zerial
Reconstitution of Rab- and SNARE-dependent membrane fusion by synthetic endosomes.
Nature, 459(7250) 1091-1097 (2009)
Wiebke Herzog, Katja Müller, Jan Huisken, Didier Y.R. Stainier
Genetic evidence for a noncanonical function of seryl-tRNA synthetase in vascular development.
Circ Res, 104(11) 1260-1266 (2009)
Christian L. Müller, Ivo F. Sbalzarini, Wilfred F van Gunsteren, Bojan Zagrović, Philippe H Hünenberger
In the eye of the beholder: Inhomogeneous distribution of high-resolution shapes within the random-walk ensemble
J Chem Phys, 130(21) Art. No. 214904 (2009)
Pia Aanstad, Nicole Santos, Kevin C Corbit, Paul J Scherz, Le A Trinh, Willi Salvenmoser, Jan Huisken, Jeremy F Reiter, Didier Y.R. Stainier
The extracellular domain of Smoothened regulates ciliary localization and is required for high-level Hh signaling.
Curr Biol, 19(12) 1034-1039 (2009)
Rileen Sinha, Swetlana Nikolajewa, Karol Szafranski, Michael Hiller, Niels Jahn, Klaus Huse, Matthias Platzer, Rolf Backofen
Accurate prediction of NAGNAG alternative splicing.
Nucleic Acids Res, 37(11) 3569-3579 (2009)
Radoslaw K Ejsmont, Mihail Sarov, Sylke Winkler, Kamil A Lipinski, Pavel Tomancák
A toolkit for high-throughput, cross-species gene engineering in Drosophila.
Nat Methods, 6(6) 435-437 (2009)
Bettina Heinrich, Zhaiyi Zhang, Oleg Raitskin, Michael Hiller, Natalya Benderska, Annette M Hartmann, Laurent Bracco, David Elliott, Shani Ben-Ari, Hermona Soreq, Joseph Sperling, Ruth Sperling, Stefan Stamm
Heterogeneous nuclear ribonucleoprotein G regulates splice site selection by binding to CC(A/C)-rich regions in pre-mRNA.
J Biol Chem, 284(21) 14303-14315 (2009)
Steffen Lawo, Mikhail Bashkurov, Michael Mullin, Mariana Gomez Ferreria, Ralf Kittler, Bianca Habermann, Andrea Tagliaferro, Ina Poser, James R A Hutchins, Björn Hegemann, Deborah Pinchev, Frank Buchholz, Jan-Michael Peters, Anthony A. Hyman, Anne-Claude Gingras, Laurence Pelletier
HAUS, the 8-subunit human Augmin complex, regulates centrosome and spindle integrity.
Curr Biol, 19(10) 816-826 (2009)
Jesper B Bramsen, Maria B Laursen, Anne F Nielsen, Thomas B Hansen, Claus Bus, Niels Langkjaer, B Ravindra Babu, Torben Højland, Mikhail Abramov, Arthur Van Aerschot, Dalibor Odadzic, Romualdas Smicius, Jens Haas, Cordula Andree, Jharna Barman, Malgorzata Wenska, Puneet Srivastava, Chuanzheng Zhou, Dmytro Honcharenko, Simone Hess, Elke Müller, Georgii V Bobkov, Sergey N Mikhailov, Eugenio Fava, Thomas F Meyer, Jyoti Chattopadhyaya, Marino Zerial, Joachim W Engels, Piet Herdewijn, Jesper Wengel, Jørgen Kjems
A large-scale chemical modification screen identifies design rules to generate siRNAs with high activity, high stability and low toxicity.
Nucleic Acids Res, 37(9) 2867-2881 (2009)
Mirko Theis, Mikolaj Slabicki, Magno Junqueira, Maciej Paszkowski-Rogacz, Jana Sontheimer, Ralf Kittler, Anne-Kristin Heninger, Timo Glatter, Kristi Kruusmaa, Ina Poser, Anthony A. Hyman, Maria Teresa Pisabarro, Matthias Gstaiger, Rudolf Aebersold, Andrej Shevchenko, Frank Buchholz
Comparative profiling identifies C13orf3 as a component of the Ska complex required for mammalian cell division.
EMBO J, 28(10) 1453-1465 (2009)
Irina Solovei, Moritz Kreysing, Christian Lanctôt, Süleyman Kösem, Leo Peichl, Thomas Cremer, Jochen Guck, Boris Joffe
Nuclear architecture of rod photoreceptor cells adapts to vision in mammalian evolution.
Cell, 137(2) 356-368 (2009)
Sven Vogel, Nenad Pavin, Nicola Maghelli, Frank Jülicher, Iva M. Tolic-Norrelykke
Self-organization of dynein motors generates meiotic nuclear oscillations.
PLoS Biol, 7(4) Art. No. e1000087 (2009)
Jan Brugués, Jaume Casademunt
Self-organization and cooperativity of weakly coupled molecular motors under unequal loading.
Phys Rev Lett, 102(11) 118104-118104 (2009)
Martin Depken, Eric A. Galburt, Stephan W. Grill
The origin of short transcriptional pauses.
Biophys J, 96(6) 2189-2193 (2009)
Hanchuan Peng, Fuhui Long, Eugene W Myers
VANO: a volume-object image annotation system.
Bioinformatics, 25(5) 695-697 (2009)
Luis G. Morelli, Saul Ares, Leah Herrgen, Christian Schröter, Frank Jülicher, Andrew C. Oates
Delayed coupling theory of vertebrate segmentation.
HFSP J, 3(1) 55-66 (2009)
Ivo F. Sbalzarini
Spatiotemporal Modeling and Simulation in Biology
In: Bioinformatics.,Hackensack, USA,World Scientific (2009),381-432 Ch. 14
Ivo F. Sbalzarini
Analysis, Modeling & Simulation of Diffusion Processes in Cell Biology
Heidelberg, Germany, VDM Verlag (2009), 388 S.
Christian L. Müller, Ivo F. Sbalzarini
A tunable real-world multi-funnel benchmark problem for evolutionary optimization (and why parallel island models might remedy the failure of CMA-ES on it)
In: Proc. Intl. Joint Conf. Computational Intelligence (IJCCI) (2009), INSTICC Press (2009), 248-253
Jo A. Helmuth, Ivo F. Sbalzarini
Deconvolving active contours for fluorescence microscopy images
In: Proc. Intl. Symp. Visual Computing (ISVC) (2009) Lecture Notes in Computer Science, Berlin;Heidelberg, Springer (2009), 544-553
Christian L. Müller, Benedikt Baumgartner, Georg Ofenbeck, Birte Schrader, Ivo F. Sbalzarini
pCMALib: a parallel FORTRAN 90 library for the evolution strategy with covariance matrix adaptation
In: Proc. ACM Genetic and Evolutionary Computation Conference (GECCO’09) (2009), New York, ACM (2009), 1-8
Janick Cardinale, Alexander Rauch, Yves Barral, Gabor Szekely, Ivo F. Sbalzarini
Bayesian image analysis with on-line confidence estimates and its application to microtubule tracking
In: In Proc. IEEE Intl. Symposium Biomedical Imaging (ISBI) (2009), Piscataway, N.J., IEEE (2009), 1091-1094
Jens H. Walther, Ivo F. Sbalzarini
Large-scale parallel discrete element simulations of granular flows
Eng Comput, 26(6) 688-697 (2009)
Harvey A Zambrano, Jens H. Walther, Petros Koumoutsakos, Ivo F. Sbalzarini
Thermophoretic motion of water nanodroplets confined inside carbon nanotubes.
Nano Lett, 9(1) 66-71 (2009)
Marija Zanic, Jeffrey H. Stear, Jonathon Howard, Anthony A. Hyman
EB1 recognizes the nucleotide state of tubulin in the microtubule lattice.
PLoS ONE, 4(10) Art. No. e7585 (2009)
Jo A. Helmuth, Ivo F. Sbalzarini
Deconvolving Active Contours for Fluorescence Microscopy Images
In: Advances in Visual Computing : 5th International Symposium Visual Computing ISVC 2009, Las Vegas, NV; USA, Nov. 30-Dec. 02, 2009 ; Poceedings, Part 1 (2009)(Eds.) George Bebis Lecture Notes in Computer Science ; 5875, Berlin;Heidelberg, Springer (2009), 544-553
Stephan Preibisch, Stephan Saalfeld, Torsten Rohlfing, Pavel Tomancák
Bead-based mosaicing of single plane illumination microscopy images using geometric local descriptor matching
In: Medical imaging 2009 : image processing : 8 - 10 Februar 2009 (2009) Ch. 7259(Eds.) Josien P. W. Pluim Proceedings of SPIE ; 7259, Bellingham, USA, SPIE (2009), 1-10
Christian L. Müller, Benedikt Baumgartner, Ivo F. Sbalzarini
Particle Swarm CMA Evolution Strategy for the Optimization of Multi-Funnel Landscapes
In: IEEE Congress on Evolutionary Computation : CEC 2009 ; Trondheim, Norway, 18 - 21 May 2009 (2009), Piscataway, N.J., IEEE (2009), 2685-2692
Elizabeth Rach, Hsiang-Yu Yuan, William H Majoros, Pavel Tomancák, Uwe Ohler
Motif composition, conservation and condition-specificity of single and alternative transcription start sites in the Drosophila genome.
Genome Biol, 10(7) Art. No. R73 (2009)
Yonathan Lissanu Deribe, Philipp Wild, Akhila Chandrashaker, Jasna Curak, Mario Schmidt, Yannis Kalaidzidis, Natasa Milutinovic, Irina Kratchmarova, Lukas Buerkle, Michael J Fetchko, Philipp Schmidt, Saranya Kittanakom, Kevin R Brown, Igor Jurisica, Blagoy Blagoev, Marino Zerial, Igor Stagljar, Ivan Dikic
Regulation of epidermal growth factor receptor trafficking by lysine deacetylase HDAC6.
Sci Signal, 2(102) Art. No. ra84 (2009)

2008

Eric Lécuyer, Pavel Tomancák
Mapping the gene expression universe.
Curr Opin Genet Dev, 18(6) 506-512 (2008)
Chantilly Munson, Jan Huisken, Nana Bit-Avragim, Taiyi Kuo, P D Dong, Elke A Ober, Heather Verkade, Salim Abdelilah-Seyfried, Didier Y.R. Stainier
Regulation of neurocoel morphogenesis by Pard6 gamma b.
Dev Biol, 324(1) 41-54 (2008)
Zdenek Petrásek, Carsten Hoege, Alireza Mashaghi, Thomas Ohrt, Anthony A. Hyman, Petra Schwille
Characterization of protein dynamics in asymmetric cell division by scanning fluorescence correlation spectroscopy.
Biophys J, 95(11) 5476-5486 (2008)
Moritz Kreysing, Tobias Kiessling, Anatol Fritsch, Christian Dietrich, Jochen Guck, J. Käs
The optical cell rotator.
Opt express, 16(21) 16984-16992 (2008)
Marisa P. McShane, Marino Zerial
Survival of the weakest: signaling aided by endosomes.
J Cell Biol, 182(5) 823-825 (2008)
Julien Mouysset, Alexandra Deichsel, Sandra Moser, Carsten Hoege, Anthony A. Hyman, Anton Gartner, Thorsten Hoppe
Cell cycle progression requires the CDC-48UFD-1/NPL-4 complex for efficient DNA replication.
Proc Natl Acad Sci U.S.A., 105(35) 12879-12884 (2008)
Mike Boxem, Zoltan Maliga, Niels Klitgord, Na Li, Irma Lemmens, Miyeko Mana, Lorenzo de Lichtervelde, Joram D. Mul, Diederik van de Peut, Maxime Devos, Nicolas Simonis, Muhammed A. Yildirim, Murat Cokol, Huey-Ling Kao, Anne-Sophie de Smet, Anne-Lore Schlaitz, Haidong Wang, Tong Hao, Stuart Milstein, Changyu Fan, Mike Tipsword, Kevin Drew, Matilde Galli, Kahn Rhrissorrakrai, David N. Drechsel, Daphne Koller, Frederick P. Roth, Lilia M. Iakoucheva, A. Keith Dunker, Richard Bonneau, Kristin C. Gunsalus, David E. Hill, Fabio Piano, Jan Tavernier, Sander van den Heuvel, Anthony A. Hyman, Marc Vidal
A protein domain-based interactome network for C. elegans early embryogenesis.
Cell, 134(3) 534-545 (2008)
Alexander W. Bird, Anthony A. Hyman
Building a spindle of the correct length in human cells requires the interaction between TPX2 and Aurora A.
J Cell Biol, 182(2) 289-300 (2008)
Michael Hiller, Matthias Platzer
Widespread and subtle: alternative splicing at short-distance tandem sites.
Trends Genet, 24(5) 246-255 (2008)
Annette Schenck, Livia Goto-Silva, Claudio Collinet, Muriel Rhinn, Angelika Giner, Bianca Habermann, Michael Brand, Marino Zerial
The endosomal protein Appl1 mediates Akt substrate specificity and cell survival in vertebrate development.
Cell, 133(3) 486-497 (2008)
Ina Poser, Mihail Sarov, James R A Hutchins, Jean-Karim Hériché, Yusuke Toyoda, Andrei I. Pozniakovsky, Daniela Weigl, Anja Nitzsche, Björn Hegemann, Alexander W. Bird, Laurence Pelletier, Ralf Kittler, Sujun Hua, Ronald Naumann, Martina Augsburg, Martina M Sykora, Helmut Hofemeister, Youming Zhang, Kim Nasmyth, Kevin P White, Steffen Dietzel, Karl Mechtler, Richard Durbin, A. Francis Stewart, Jan-Michael Peters, Frank Buchholz, Anthony A. Hyman
BAC TransgeneOmics: a high-throughput method for exploration of protein function in mammals.
Nat Methods, 5(5) 409-415 (2008)
Chong Hyun Shin, Won-Suk Chung, Sung-Kook Hong, Elke A Ober, Heather Verkade, Holly A Field, Jan Huisken, Didier Y.R. Stainier
Multiple roles for Med12 in vertebrate endoderm development.
Dev Biol, 317(2) 467-479 (2008)
Neil C Chi, Robin M Shaw, Benno Jungblut, Jan Huisken, Tania Ferrer, Rima Arnaout, Ian Scott, Dimitris Beis, Tong Xiao, Herwig Baier, Lily Y Jan, Martin Tristani-Firouzi, Didier Y.R. Stainier
Genetic and physiologic dissection of the vertebrate cardiac conduction system.
PLoS Biol, 6(5) 109-109 (2008)
Michael Hiller, Karol Szafranski, Rileen Sinha, Klaus Huse, Swetlana Nikolajewa, Philip Rosenstiel, Stefan Schreiber, Rolf Backofen, Matthias Platzer
Assessing the fraction of short-distance tandem splice sites under purifying selection.
RNA, 14(4) 616-629 (2008)
Tobias Bollenbach, Periklis Pantazis, Anna Kicheva, Christian Bökel, Marcos González-Gaitán, Frank Jülicher
Precision of the Dpp gradient.
Development, 135(6) 1137-1146 (2008)
Paul J Scherz, Jan Huisken, Pankaj Sahai-Hernandez, Didier Y.R. Stainier
High-speed imaging of developing heart valves reveals interplay of morphogenesis and function.
Development, 135(6) 1179-1187 (2008)
Gary J. Brouhard, Jeffrey H. Stear, Tim L. Noetzel, Jawdat Al-Bassam, Kazuhisa Kinoshita, Stephen C. Harrison, Jonathon Howard, Anthony A. Hyman
XMAP215 is a processive microtubule polymerase.
Cell, 132(1) 79-88 (2008)
Jan Brugués, Jordi Ignés-Mullol, Jaume Casademunt, Francesc Sagués
Probing elastic anisotropy from defect dynamics in Langmuir monolayers.
Phys Rev Lett, 100(3) 37801-37801 (2008)
Michael Hiller, Karol Szafranski, Klaus Huse, Rolf Backofen, Matthias Platzer
Selection against tandem splice sites affecting structured protein regions.
BMC Evol Biol, 8 89-89 (2008)
Perla Del Conte-Zerial, Lutz Brusch, Jochen Rink, Claudio Collinet, Yannis Kalaidzidis, Marino Zerial, Andreas Deutsch
Membrane identity and GTPase cascades regulated by toggle and cut-out switches.
Mol Syst Biol, 4 206-206 (2008)
Stephan Preibisch, Torsten Rohlfing, Michael P. Hasak, Pavel Tomancák
Mosaicing of Single Plane Illumination Microscopy Images Using Groupwise Registration and Fast Content-Based Image Fusion
In: Medical imaging 2008 - image processing : 17-19 February 2008, San Diego, California, USA (2008)(Eds.) Joseph M. Reinhardt Proceedings of SPIE ; 6914, Bellingham, USA, SPIE (2008), 1-8
Fuhui Long, Hanchuan Peng, Xiao Liu, Stuart K Kim, Gene Myers
Automatic recognition of cells (ARC) for 3D images of C. elegans
In: Proc. 2008 Conf. on Computational Molecular Biology (RECOMB) (Singapore, 2008) (2008) Lecture Notes in Computer Science ; 4955, New York, Springer (2008), 128-139
Hanchuan Peng, Fuhui Long, Xiao Liu, Stuart K Kim, Eugene W Myers
Straightening Caenorhabditis elegans images.
Bioinformatics, 24(2) 234-242 (2008)
Stephan Saalfeld, Pavel Tomancák
Automatic landmark correspondence detection for ImageJ
In: Proceedings of the ImageJ User and Developer Conference 2008 : [6th & 7th November 2008, Luxembourg] (2008), Luxembourg, Centre de recherche public Henri Tudor (2008), 128-133
Stephan Preibisch, Stephan Saalfeld, Pavel Tomancák
Fast stitching of large 3d biological datasets
In: Proceedings of the ImageJ User and Developer Conference 2008 : [6th & 7th November 2008, Luxembourg] (2008), Luxembourg, Centre de recherche public Henri Tudor (2008), 134-139
Stephan Preibisch, Radoslaw K Ejsmont, Torsten Rohlfing, Pavel Tomancák
Towards digital representation of Drosophila embryogenesis
In: 2008 IEEE International Symposium on Biomedical Imaging : from Nano to Macro : [ISBI '08]; Paris, France, 14-17 May 2008 (2008), Piscataway, USA, IEEE Service Center (2008), 324-327
Arun Pal, Fedor F. Severin, Sebastian Höpfner, Marino Zerial
Regulation of endosome dynamics by Rab5 and Huntingtin-HAP40 effector complex in physiological versus pathological conditions
In: Small GTPases in disease. (Eds.) William E. Balch Methods in enzymology ; 438.,Amsterdam, Netherlands,Elsevier (2008),239-257 Ch. 17
Rileen Sinha, Michael Hiller, Rainer Pudimat, Ulrike Gausmann, Matthias Platzer, Rolf Backofen
Improved identification of conserved cassette exons using Bayesian networks.
BMC Bioinformatics, 9 477-477 (2008)
Eva-Maria Schoetz, Rebecca D. Burdine, Frank Jülicher, Malcolm S. Steinberg, Carl-Philipp Heisenberg, Ramsey A. Foty
Quantitative differences in tissue surface tension influence zebrafish germ layer positioning
HFSP J, 2(1) 42-56 (2008)
Stefanie Schindler, Karol Szafranski, Michael Hiller, Gul Shad Ali, Saiprasad G Palusa, Rolf Backofen, Matthias Platzer, Anireddy S N Reddy
Alternative splicing at NAGNAG acceptors in Arabidopsis thaliana SR and SR-related protein-coding genes.
BMC Genomics, 9 159-159 (2008)
Carlos Quijano, Pavel Tomancák, Jesus Lopez-Marti, Mikita Suyama, Peer Bork, Marco Milan, David Torrents, Miguel Manzanares
Selective maintenance of Drosophila tandemly arranged duplicated genes during evolution.
Genome Biol, 9(12) 176-176 (2008)
Victor F Lundin, Martin Srayko, Anthony A. Hyman, Michel R Leroux
Efficient chaperone-mediated tubulin biogenesis is essential for cell division and cell migration in C. elegans.
Dev Biol, 313(1) 320-334 (2008)
Klaus Huse, Stefan Taudien, Marco Groth, Philip Rosenstiel, Karol Szafranski, Michael Hiller, Jochen Hampe, Kerstin Junker, Jorg Schubert, Stefan Schreiber, Gerd Birkenmeier, Michael Krawczak, Matthias Platzer
Genetic variants of the copy number polymorphic beta-defensin locus are associated with sporadic prostate cancer.
Tumour Biol, 29(2) 83-92 (2008)
Rebecca A. Green, Anjon Audhya, Andrei I. Pozniakovsky, Alexander Dammermann, Hayley Pemble, Joost Monen, Nathan Portier, Anthony A. Hyman, Arshad Desai, Karen Oegema
Expression and imaging of fluorescent proteins in the C. elegans gonad and early embryo
In: Fluorescent Proteins. (Eds.) Kevin F. Sullivan Methods in cell biology, 85.,Amsterdam, Netherlands,Elsevier (2008),179-218 Ch. 9
Fei Zhu, Steffen Lawo, Alexander W. Bird, Deborah Pinchev, Alison Ralph, Constance Richter, Thomas Müller-Reichert, Ralf Kittler, Anthony A. Hyman, Laurence Pelletier
The mammalian SPD-2 ortholog Cep192 regulates centrosome biogenesis.
Curr Biol, 18(2) 136-141 (2008)

2007

Reza Farhadifar, Jens-Christian Röper, Benoit Aigouy, Suzanne Eaton, Frank Jülicher
The influence of cell mechanics, cell-cell interactions, and proliferation on epithelial packing.
Curr Biol, 17(24) 2095-2104 (2007)
Ralf Kittler, Laurence Pelletier, Anne-Kristin Heninger, Mikolaj Slabicki, Mirko Theis, Lukasz Miroslaw, Ina Poser, Steffen Lawo, Hannes Grabner, Karol Kozak, Jan Wagner, Vineeth Surendranath, Constance Richter, Wayne Bowen, Aimee L Jackson, Bianca Habermann, Anthony A. Hyman, Frank Buchholz
Genome-scale RNAi profiling of cell division in human tissue culture cells.
Nat Cell Biol, 9(12) 1401-1412 (2007)
Michael Hiller, Zhaiyi Zhang, Rolf Backofen, Stefan Stamm
Pre-mRNA secondary structures influence exon recognition.
PLoS Genet, 3(11) 204-204 (2007)
David J Begun, Alisha K Holloway, Kristian Stevens, LaDeana W Hillier, Yu-Ping Poh, Matthew W Hahn, Phillip M Nista, Corbin D Jones, Andrew D Kern, Colin N Dewey, Lior Pachter, Eugene Myers, Charles H Langley
Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans.
PLoS Biol, 5(11) 310-310 (2007)
Céline Elie-Caille, Fedor F. Severin, Jonne H. Helenius, Jonathon Howard, Daniel J. Müller, Anthony A. Hyman
Straight GDP-tubulin protofilaments form in the presence of taxol.
Curr Biol, 17(20) 1765-1770 (2007)
Eric Lécuyer, Hiroyuki Yoshida, Neela Parthasarathy, Christina Alm, Tomas Babak, Tanja Cerovina, Timothy R Hughes, Pavel Tomancák, Henry M Krause
Global analysis of mRNA localization reveals a prominent role in organizing cellular architecture and function.
Cell, 131(1) 174-187 (2007)
Jan Huisken, Didier Y.R. Stainier
Even fluorescence excitation by multidirectional selective plane illumination microscopy (mSPIM).
Opt Lett, 32(17) 2608-2610 (2007)
Jo A. Helmuth, C J Burckhardt, Petros Koumoutsakos, U F Greber, Ivo F. Sbalzarini
A novel supervised trajectory segmentation algorithm identifies distinct types of human adenovirus motion in host cells
J Struct Biol, 159(3) 347-358 (2007)
Stephanie Schonegg, Alexandru T. Constantinescu, Carsten Hoege, Anthony A. Hyman
The Rho GTPase-activating proteins RGA-3 and RGA-4 are required to set the initial size of PAR domains in Caenorhabditis elegans one-cell embryos.
Proc Natl Acad Sci U.S.A., 104(38) 14976-14981 (2007)
Swetlana Nikolajewa, Rainer Pudimat, Michael Hiller, Matthias Platzer, Rolf Backofen
BioBayesNet: a web server for feature extraction and Bayesian network modeling of biological sequence data.
Nucleic Acids Res, 35(Web Server issue) 688-693 (2007)
Rima Arnaout, Tania Ferrer, Jan Huisken, Kenneth Spitzer, Didier Y.R. Stainier, Martin Tristani-Firouzi, Neil C Chi
Zebrafish model for human long QT syndrome.
Proc Natl Acad Sci U.S.A., 104(27) 11316-11321 (2007)
Jim Swoger, Peter Verveer, Klaus Greger, Jan Huisken, Ernst H K Stelzer
Multi-view image fusion improves resolution in three-dimensional microscopy.
Opt express, 15(13) 8029-8042 (2007)
Peter C Stirling, Martin Srayko, Karam S Takhar, Andrei I. Pozniakovsky, Anthony A. Hyman, Michel R Leroux
Functional interaction between phosducin-like protein 2 and cytosolic chaperonin is essential for cytoskeletal protein function and cell cycle progression.
Mol Biol Cell, 18(6) 2336-2345 (2007)
Jan Huisken, Jim Swoger, Ernst H K Stelzer
Three-dimensional optical manipulation using four collimated intersecting laser beams.
Opt express, 15(8) 4921-4928 (2007)
Eric A. Galburt, Stephan W. Grill, Anna Wiedmann, Lucyna Lubkowska, Jason Choy, Eva Nogales, Mikhail Kashlev, Carlos Bustamante
Backtracking determines the force sensitivity of RNAP II in a factor-dependent manner.
Nature, 446(7137) 820-823 (2007)
Torben Lessmann, Michele G Leuenberger, Sascha Menninger, Meritxell Lopez-Canet, Oliver Müller, Stefan Hümmer, Jenny Bormann, Kerstin Korn, Eugenio Fava, Marino Zerial, Thomas U Mayer, Herbert Waldmann
Natural product-derived modulators of cell cycle progression and viral entry by enantioselective oxa Diels-Alder reactions on the solid phase.
Chem Biol, 14(4) 443-451 (2007)
Carrie R. Cowan, Anthony A. Hyman
Acto-myosin reorganization and PAR polarity in C. elegans.
Development, 134(6) 1035-1043 (2007)
Christopher D Smith, Robert C Edgar, Mark D Yandell, Douglas R Smith, Susan E Celniker, Eugene W Myers, Gary H Karpen
Improved repeat identification and masking in Dipterans.
Gene, 389(1) 1-9 (2007)
Jawdat Al-Bassam, Nicholas A. Larsen, Anthony A. Hyman, Stephen C. Harrison
Crystal structure of a TOG domain: conserved features of XMAP215/Dis1-family TOG domains and implications for tubulin binding.
Structure, 15(3) 355-362 (2007)
Alexander Zumdieck, Karsten Kruse, Henrik Bringmann, Anthony A. Hyman, Frank Jülicher
Stress generation and filament turnover during actin ring constriction.
PLoS ONE, 2(1) 696-696 (2007)
Jonathon Howard, Anthony A. Hyman
Microtubule polymerases and depolymerases.
Curr Opin Cell Biol, 19(1) 31-35 (2007)
Ivo F. Sbalzarini
Informatik und Biologie – Eine Symbiose ermöglicht neue Entdeckungen
Vierteljahresschrift der Naturforschenden Gesellschaft in Zurich, 152(3) 63-70 (2007)
Tobias Bollenbach, Karsten Kruse, Periklis Pantazis, Marcos González-Gaitán, Frank Jülicher
Morphogen transport in epithelia.
Phys Rev E, 75(1 Pt 1) 11901-11901 (2007)
Ingmar H. Riedel, Andreas Hilfinger, Jonathon Howard, Frank Jülicher
How molecular motors shape the flagellar beat
HFSP J, 1(1) 192-208 (2007)
Jens H. Walther, Ivo F. Sbalzarini
Large-scale parallel discrete element simulations of granular flow
In: Proceedings of the International Conference on Discrete Element Modelling (DEM07) (2007), Amsterdam, Netherlands, Academic Press (2007), 1-8
Michael Hiller, Swetlana Nikolajewa, Klaus Huse, Karol Szafranski, Philip Rosenstiel, Stefan Schuster, Rolf Backofen, Matthias Platzer
TassDB: a database of alternative tandem splice sites.
Nucleic Acids Res, 35(Database issue) 188-192 (2007)
Fuhui Long, Hanchuan Peng, Eugene W Myers
Automatic Segmentation of Nuclei in 3D Microscopy Images of C. Elegans
In: Proceedings in 4th IEEE International Symposium on Biomedical Imaging: from Nano to Macro (2007), Piscataway, N.J., IEEE (2007), 536-539
Hanchuan Peng, Fuhui Long, Eugene W Myers
STRAIGHTENING WORM IMAGES
In: Proceedings in 4th IEEE International Symposium on Biomedical Imaging: from Nano to Macro, 2007 : ISBI 2007 ; 12 - 15 April 2007, Arlington, Virginia, USA (2007), Piscataway, N.J., IEEE (2007), 292-295
Hanchuan Peng, Fuhui Long, Jie Zhou, Garmay Leung, Michael B Eisen, Eugene W Myers
Automatic image analysis for gene expression patterns of fly embryos.
BMC Cell Biol, 8 Suppl 1 7-7 (2007)
Henrik Bringmann, Carrie R. Cowan, Jun Kong, Anthony A. Hyman
LET-99, GOA-1/GPA-16, and GPR-1/2 are required for aster-positioned cytokinesis.
Curr Biol, 17(2) 185-191 (2007)
Anna Kicheva, Periklis Pantazis, Tobias Bollenbach, Yannis Kalaidzidis, Thomas Bittig, Frank Jülicher, Marcos González-Gaitán
Kinetics of morphogen gradient formation.
Science, 315(5811) 521-525 (2007)
Anne-Lore Schlaitz, Martin Srayko, Alexander Dammermann, Sophie Quintin, Natalie Wielsch, Ian MacLeod, Quentin de Robillard, Andrea Zinke, John R. Yates, Thomas Müller-Reichert, Andrej Shevchenko, Karen Oegema, Anthony A. Hyman
The C. elegans RSA complex localizes protein phosphatase 2A to centrosomes and regulates mitotic spindle assembly.
Cell, 128(1) 115-127 (2007)
Michael M Mwangi, Shang Wei Wu, Yanjiao Zhou, Krzysztof Sieradzki, Herminia de Lencastre, Paul Richardson, David Bruce, Edward Rubin, Eugene W Myers, Eric D Siggia, Alexander Tomasz
Tracking the in vivo evolution of multidrug resistance in Staphylococcus aureus by whole-genome sequencing
Proc Natl Acad Sci U.S.A., 104(22) 9451-9456 (2007)
Tiago R Magalhães, Jessica Palmer, Pavel Tomancák, Katherine S Pollard
Transcriptional control in embryonic Drosophila midline guidance assessed through a whole genome approach.
BMC neuroscience, 8 59-59 (2007)
Paul Medvedev, Konstantinos Georgiou, Gene Myers, Michael Brudno
Computability of Models for Sequence Assembly
In: Proceedings in Algorithms in bioinformatics : 7th international workshop, WABI 2007, Philadelphia, PA, USA (2007) Lecture notes in computer science ; 4645, Berlin;Heidelberg, Springer (2007), 289-301
Karol Szafranski, Stefanie Schindler, Stefan Taudien, Michael Hiller, Klaus Huse, Niels Jahn, Stefan Schreiber, Rolf Backofen, Matthias Platzer
Violating the splicing rules: TG dinucleotides function as alternative 3' splice sites in U2-dependent introns.
Genome Biol, 8(8) 154-154 (2007)
Benjamin P Berman, Pavel Tomancák, Amy Beaton, Richard Weiszmann, Elaine Kwan, Volker Hartenstein, Susan E Celniker, Gerald M Rubin
Global analysis of patterns of gene expression during Drosophila embryogenesis.
Genome Biol, 8(7) 145-145 (2007)
Thomas Müller-Reichert, Martin Srayko, Anthony A. Hyman, Eileen T. O'Toole, Kent McDonald
Correlative Light and Electron Microscopy of Early Caenorhabditis elegans Embryos in Mitosis
In: Cellular electron microscopy. (Eds.) J. Richard McIntosh Methods in cell biology ; 79.,Amsterdam, Netherlands,Elsevier (2007),101-119 Ch. 4

2006

Carrie R. Cowan, Anthony A. Hyman
Cyclin E-Cdk2 temporally regulates centrosome assembly and establishment of polarity in Caenorhabditis elegans embryos.
Nat Cell Biol, 8(12) 1441-1447 (2006)
Sharsti Sandall, Fedor F. Severin, Ian X. McLeod, John R. Yates, Karen Oegema, Anthony A. Hyman, Arshad Desai
A Bir1-Sli15 complex connects centromeres to microtubules and is required to sense kinetochore tension.
Cell, 127(6) 1179-1191 (2006)
Jacques Pecreaux, Jens-Christian Röper, Karsten Kruse, Frank Jülicher, Anthony A. Hyman, Stephan W. Grill, Jonathon Howard
Spindle oscillations during asymmetric cell division require a threshold number of active cortical force generators.
Curr Biol, 16(21) 2111-2122 (2006)
Michael Hiller, Karol Szafranski, Rolf Backofen, Matthias Platzer
Alternative splicing at NAGNAG acceptors: simply noise or noise and more?
PLoS Genet, 2(11) 207-208 (2006)
Yongli Zhang, Corey L Smith, Anjanabha Saha, Stephan W. Grill, Shirley Mihardja, Steven B Smith, Bradley R Cairns, Craig L Peterson, Carlos Bustamante
DNA translocation and loop formation mechanism of chromatin remodeling by SWI/SNF and RSC.
Mol Cell, 24(4) 559-568 (2006)
Laurence Pelletier, Eileen T. O'Toole, Anne Schwager, Anthony A. Hyman, Thomas Müller-Reichert
Centriole assembly in Caenorhabditis elegans.
Nature, 444(7119) 619-623 (2006)
Martin Srayko, Eileen T. O'Toole, Anthony A. Hyman, Thomas Müller-Reichert
Katanin disrupts the microtubule lattice and increases polymer number in C. elegans meiosis.
Curr Biol, 16(19) 1944-1949 (2006)
Mihail Sarov, Susan Schneider, Andrei I. Pozniakovsky, Assen Roguev, Susanne Ernst, Youming Zhang, Anthony A. Hyman, A. Francis Stewart
A recombineering pipeline for functional genomics applied to Caenorhabditis elegans.
Nat Methods, 3(10) 839-844 (2006)
Stephanie Schonegg, Anthony A. Hyman
CDC-42 and RHO-1 coordinate acto-myosin contractility and PAR protein localization during polarity establishment in C. elegans embryos.
Development, 133(18) 3507-3516 (2006)
Matthias Platzer, Michael Hiller, Karol Szafranski, Niels Jahn, Jochen Hampe, Stefan Schreiber, Rolf Backofen, Klaus Huse
Sequencing errors or SNPs at splice-acceptor guanines in dbSNP?
Nat Biotechnol, 24(9) 1068-1070 (2006)
Vladimir Varga, Jonne H. Helenius, Kozo Tanaka, Anthony A. Hyman, Tomoyuki U Tanaka, Jonathon Howard
Yeast kinesin-8 depolymerizes microtubules in a length-dependent manner.
Nat Cell Biol, 8(9) 957-962 (2006)
Tien-Ho Lin, Eugene W Myers, Eric P Xing
Interpreting anonymous DNA samples from mass disasters--probabilistic forensic inference using genetic markers.
Bioinformatics, 22(14) 298-306 (2006)
Veronica Dudu, Thomas Bittig, Eugeni V. Entchev, Anna Kicheva, Frank Jülicher, Marcos González-Gaitán
Postsynaptic mad signaling at the Drosophila neuromuscular junction.
Curr Biol, 16(7) 625-635 (2006)
Jan Brugués, Joaquim Gomis, Kiyoshi Kamimura
Newton-Hooke algebras, nonrelativistic branes, and generalized pp-wave metrics
Physical Review D, 73(8) Art. No. 085011 (2006)
Kim R Rasmussen, Jens Stoye, Eugene W Myers
Efficient q-gram filters for finding all epsilon-matches over a given length.
J Comput Biol, 13(2) 296-308 (2006)
Jawdat Al-Bassam, Mark van Breugel, Stephen C. Harrison, Anthony A. Hyman
Stu2p binds tubulin and undergoes an open-to-closed conformational change.
J Cell Biol, 172(7) 1009-1022 (2006)
Ivo F. Sbalzarini, Arnold Hayer, Ari Helenius, Petros Koumoutsakos
Simulations of (an)isotropic diffusion on curved biological surfaces.
Biophys J, 90(3) 878-885 (2006)
Michael Hiller, Klaus Huse, Karol Szafranski, Niels Jahn, Jochen Hampe, Stefan Schreiber, Rolf Backofen, Matthias Platzer
Single-nucleotide polymorphisms in NAGNAG acceptors are highly predictive for variations of alternative splicing.
Am J Hum Genet, 78(2) 291-302 (2006)
Arun Pal, Fedor F. Severin, Barbara Lommer, Anna Shevchenko, Marino Zerial
Huntingtin-HAP40 complex is a novel Rab5 effector that regulates early endosome motility and is up-regulated in Huntington's disease.
J Cell Biol, 172(4) 605-618 (2006)
Ivo F. Sbalzarini
Analysis, Modeling, and Simulation of Diffusion Processes in Cell Biology
Ph.D. Thesis,ETH Zurich, Department of Computer Science, Zurich, Switzerland (2006)
Karen Oegema, Anthony A. Hyman
Cell division.
WormBook : the online review of C. elegans biology, Jan 19 1-40 (2006)
Michael Hiller, Rainer Pudimat, Anke Busch, Rolf Backofen
Using RNA secondary structures to guide sequence motif finding towards single-stranded regions.
Nucleic Acids Res, 34(17) 117-117 (2006)
Michael Hiller, Klaus Huse, Karol Szafranski, Philip Rosenstiel, Stefan Schreiber, Rolf Backofen, Matthias Platzer
Phylogenetically widespread alternative splicing at unusual GYNGYN donors.
Genome Biol, 7(7) 65-65 (2006)
Ivo F. Sbalzarini, Jens H. Walther, Bettina Polasek, Philippe Chatelain, M. Bergdorf, Simone E. Hieber, Evangelos M. Kotsalis, Petros Koumoutsakos
A Software Framework for Portable Parallelization of Particle-Mesh Simulations
In: Proc. EuroPar (2006)(Eds.) Wolfgang E Nagel Lecture Notes in Computer Science, New York, Springer (2006), 730-739
Hanchuan Peng, Fuhui Long, Michael B Eisen, Eugene W Myers
Clustering gene expression patterns of fly embryos
In: Proceedings in 3rd IEEE International Symposium on Biomedical Imaging: Macro to Nano (2006), Piscataway, N.J., IEEE (2006), 1144-1147
Kazuhisa Kinoshita, Tim L. Noetzel, Isabelle Arnal, David N. Drechsel, Anthony A. Hyman
Global and local control of microtubule destabilization promoted by a catastrophe kinesin MCAK/XKCM1.
J Muscle Res Cell Motil, 27(2) 107-114 (2006)
Simon F. Tolić-Nørrelykke, Erik Schäffer, Jonathon Howard, Francesco S. Pavone, Frank Jülicher, Henrik Flyvbjerg
Calibration of optical tweezers with positional detection in the back focal plane
Rev Sci Instrum, 77(10) 1-11 (2006)
Ivo F. Sbalzarini, J. Walther, M. Bergdorf, Simone E. Hieber, Evangelos M. Kotsalis, Petros Koumoutsakos
PPM – A highly efficient parallel particle–mesh library for the simulation of continuum systems
J Comput Phys, 215 566-588 (2006)

2005

A. Aziz Aboobaker, Pavel Tomancák, Nipam Patel, Gerald M Rubin, Eric C. Lai
Drosophila microRNAs exhibit diverse spatial expression patterns during embryonic development.
Proc Natl Acad Sci U.S.A., 102(50) 18017-18022 (2005)
Sally Martin, Kim Driessen, Susan J. Nixon, Marino Zerial, Robert G. Parton
Regulated localization of Rab18 to lipid droplets: effects of lipolytic stimulation and inhibition of lipid droplet catabolism.
J Biol Chem, 280(51) 42325-42335 (2005)
Helge Ewers, Alicia E. Smith, Ivo F. Sbalzarini, Hauke Lilie, Petros Koumoutsakos, Ari Helenius
Single-particle tracking of murine polyoma virus-like particles on live cells and artificial membranes
Proc Natl Acad Sci U.S.A., 102(42) 15110-15115 (2005)
Eugene W Myers
The fragment assembly string graph.
Bioinformatics, 21 Suppl 2 79-85 (2005)
Ivo F. Sbalzarini, Anna Mezzacasa, Ari Helenius, Petros Koumoutsakos
Effects of organelle shape on fluorescence recovery after photobleaching
Biophys J, 89(3) 1482-1492 (2005)
Jochen Rink, Eric Ghigo, Yannis Kalaidzidis, Marino Zerial
Rab conversion as a mechanism of progression from early to late endosomes.
Cell, 122(5) 735-749 (2005)
Kazuhisa Kinoshita, Tim L. Noetzel, Laurence Pelletier, Karl Mechtler, David N. Drechsel, Anne Schwager, Mike Lee, Jordan W Raff, Anthony A. Hyman
Aurora A phosphorylation of TACC3/maskin is required for centrosome-dependent microtubule assembly in mitosis.
J Cell Biol, 170(7) 1047-1055 (2005)
Gaëtane Macé, Marta Miaczynska, Marino Zerial, Angel R Nebreda
Phosphorylation of EEA1 by p38 MAP kinase regulates mu opioid receptor endocytosis.
EMBO J, 24(18) 3235-3246 (2005)
Teresa P. Barros, Kazuhisa Kinoshita, Anthony A. Hyman, Jordan W Raff
Aurora A activates D-TACC-Msps complexes exclusively at centrosomes to stabilize centrosomal microtubules.
J Cell Biol, 170(7) 1039-1046 (2005)
Marcel Margulies, Michael Egholm, William E Altman, Said Attiya, Joel S Bader, Lisa A Bemben, Jan Berka, Michael S Braverman, Yi-Ju Chen, Zhoutao Chen, Scott B Dewell, Lei Du, Joseph M Fierro, Xavier V Gomes, Brian C Godwin, Wen He, Scott Helgesen, Chun Heen Ho, Gerard P Irzyk, Szilveszter C Jando, Maria L I Alenquer, Thomas P Jarvie, Kshama B Jirage, Jong-Bum Kim, James R Knight, Janna R Lanza, John H Leamon, Steven M Lefkowitz, Ming Lei, Jing Li, Kenton L Lohman, Hong Lu, Vinod B Makhijani, Keith E McDade, Michael P McKenna, Eugene W Myers, Elizabeth Nickerson, John R Nobile, Ramona Plant, Bernard P Puc, Michael T Ronan, George T Roth, Gary J Sarkis, Jan Fredrik Simons, John W Simpson, Maithreyan Srinivasan, Karrie R Tartaro, Alexander Tomasz, Kari A Vogt, Greg A Volkmer, Shally H Wang, Yong Wang, Michael P Weiner, Pengguang Yu, Richard F Begley, Jonathan M Rothberg
Genome sequencing in microfabricated high-density picolitre reactors.
Nature, 437(7057) 376-380 (2005)
Ivo F. Sbalzarini, Petros Koumoutsakos
Feature point tracking and trajectory analysis for video imaging in cell biology
J Struct Biol, 151(2) 182-195 (2005)
Hye-Won Shin, Mitsuko Hayashi, Savvas Christoforidis, Sandra Lacas-Gervais, Sebastian Hoepfner, Markus R Wenk, Jan Modregger, Sandrine Uttenweiler-Joseph, Matthias Wilm, Arne Nystuen, Wayne N Frankel, Michele Solimena, Pietro De Camilli, Marino Zerial
An enzymatic cascade of Rab5 effectors regulates phosphoinositide turnover in the endocytic pathway.
J Cell Biol, 170(4) 607-618 (2005)
Henrik Bringmann, Anthony A. Hyman
A cytokinesis furrow is positioned by two consecutive signals.
Nature, 436(7051) 731-734 (2005)
Martin Srayko, Aynur Kaya, Joanne Stamford, Anthony A. Hyman
Identification and characterization of factors required for microtubule growth and nucleation in the early C. elegans embryo.
Dev Cell, 9(2) 223-236 (2005)
Nurhan Ozlü, Martin Srayko, Kazuhisa Kinoshita, Bianca Habermann, Eileen T. O'Toole, Thomas Müller-Reichert, Natalie Schmalz, Arshad Desai, Anthony A. Hyman
An essential function of the C. elegans ortholog of TPX2 is to localize activated aurora A kinase to mitotic spindles.
Dev Cell, 9(2) 237-248 (2005)
Kristin C. Gunsalus, Hui Ge, Aaron J Schetter, Debra S Goldberg, Jing-Dong J Han, Tong Hao, Gabriel F Berriz, Nicolas Bertin, Jerry Huang, Ling-Shiang Chuang, Ning Li, Ramamurthy Mani, Anthony A. Hyman, Birte Sönnichsen, Christophe J. Echeverri, Frederick P. Roth, Marc Vidal, Fabio Piano
Predictive models of molecular machines involved in Caenorhabditis elegans early embryogenesis.
Nature, 436(7052) 861-865 (2005)
Ingmar H. Riedel
Mechanics of the axoneme: self-organized beating patterns and vortex arrays of spermatozoa
Ph.D. Thesis,Technische Universität Dresden, Dresden, Germany (2005)
Lucas Pelkmans, Marino Zerial
Kinase-regulated quantal assemblies and kiss-and-run recycling of caveolae.
Nature, 436(7047) 128-133 (2005)
Lucas Pelkmans, Eugenio Fava, Hannes Grabner, Michael Hannus, Bianca Habermann, Eberhard Krausz, Marino Zerial
Genome-wide analysis of human kinases in clathrin- and caveolae/raft-mediated endocytosis.
Nature, 436(7047) 78-86 (2005)
Roded Sharan, Eugene W Myers
A motif-based framework for recognizing sequence families.
Bioinformatics, 21 Suppl 1 387-393 (2005)
Robert C Edgar, Eugene W Myers
PILER: identification and classification of genomic repeats.
Bioinformatics, 21 Suppl 1 152-158 (2005)
Cosima Luedeke, Stéphanie Buvelot Frei, Ivo F. Sbalzarini, Heinz Schwarz, Anne Spang, Yves Barral
Septin-dependent compartmentalization of the endoplasmic reticulum during yeast polarized growth.
J Cell Biol, 169(6) 897-908 (2005)
Thimo Kurz, Nurhan Ozlü, Fabian Rudolf, Sean M O'Rourke, Brian Luke, Kay Hofmann, Anthony A. Hyman, Bruce Bowerman, Matthias Peter
The conserved protein DCN-1/Dcn1p is required for cullin neddylation in C. elegans and S. cerevisiae.
Nature, 435(7046) 1257-1261 (2005)
Sebastian Hoepfner, Fedor F. Severin, Alicia Cabezas, Bianca Habermann, Anja Runge, David J. Gillooly, Harald Stenmark, Marino Zerial
Modulation of receptor recycling and degradation by the endosomal kinesin KIF16B.
Cell, 121(3) 437-450 (2005)
Stephan W. Grill, Anthony A. Hyman
Spindle positioning by cortical pulling forces.
Dev Cell, 8(4) 461-465 (2005)
Jan Brugués, Joan Rojo, Jorge G. Russo
Nonperturbative states in type II superstring theory from classical spinning membranes
Nucl Phys B, 710(1-2) 117-138 (2005)
Stephan W. Grill, Karsten Kruse, Frank Jülicher
Theory of mitotic spindle oscillations.
Phys Rev Lett, 94(10) 108104-108104 (2005)
Anthony A. Hyman
Boveri revisited.
EMBO J, 24(6) 1104-1110 (2005)
Tim L. Noetzel, David N. Drechsel, Anthony A. Hyman, Kazuhisa Kinoshita
A comparison of the ability of XMAP215 and tau to inhibit the microtubule destabilizing activity of XKCM1.
Philos Trans R Soc Lond B Biol Sci, 360(1455) 591-594 (2005)
Birte Sönnichsen, L B Koski, A Walsh, P Marschall, B Neumann, Michael Brehm, Anne-Marie Alleaume, J. Artelt, P Bettencourt, E Cassin, M Hewitson, Christian Holz, M Khan, S Lazik, Claudia Martin, Bert Nitzsche, Martine Ruer, Joanne Stamford, Maria Winzi, R Heinkel, M Röder, J Finell, H Häntsch, S J M Jones, M Jones, Fabio Piano, Kristin C. Gunsalus, Karen Oegema, Pierre Gönczy, A Coulson, Anthony A. Hyman, C J Echeverri
Full-genome RNAi profiling of early embryogenesis in Caenorhabditis elegans.
Nature, 434(7032) 462-469 (2005)
Ralf Kittler, Laurence Pelletier, Chunling Ma, Ina Poser, Steffi Fischer, Anthony A. Hyman, Frank Buchholz
RNA interference rescue by bacterial artificial chromosome transgenesis in mammalian tissue culture cells.
Proc Natl Acad Sci U.S.A., 102(7) 2396-2401 (2005)
Eugene W Myers
Building Fragment Assembly String Graphs
Bioinformatics, 1-9 (2005)
Michael Hiller, Klaus Huse, Matthias Platzer, Rolf Backofen
Non-EST based prediction of exon skipping and intron retention events using Pfam information.
Nucleic Acids Res, 33(17) 5611-5621 (2005)
Michael Hiller, Klaus Huse, Matthias Platzer, Rolf Backofen
Creation and disruption of protein features by alternative splicing -- a novel mechanism to modulate function.
Genome Biol, 6(7) 58-58 (2005)
Ivo F. Sbalzarini, Helge Ewers, Alicia E. Smith, Ari Helenius, Petros Koumoutsakos
Heimtückische Viren auf lebenden Zellen
ETH Bulletin, 298 48-50 (2005)
Tobias Bollenbach, Karsten Kruse, Periklis Pantazis, Marcos González-Gaitán, Frank Jülicher
Robust formation of morphogen gradients.
Phys Rev Lett, 94(1) 18103-18103 (2005)
Anthony A. Hyman, Jonathon Howard
Cell structure and dynamics
Curr Opin Cell Biol, 17 1-2 (2005)
Eberhard Krausz, Lucas Pelkmans, Eugenio Fava, Michael Hannus, Claudia Möbius, Kerstin Korn, Francoise Halley, Annett Lohmann, Hannes Grabner, Marino Zerial
Genomweite funktionelle Analyse des Kinoms mittels RNA-Interfernz
BIOspektrum, 11(SH) 518-520 (2005)
Kim R Rasmussen, Jens Stoye, Eugene W Myers
Efficient q-Gram Filters for Finding All ε-Matches over a Given Length
In: Proceedings in Research in computational molecular biology : 9th annual international conference, RECOMB 2005, Cambridge, MA, USA (2005) Lecture notes in computer science ; 3500, Berlin;Heidelberg, Springer (2005), 189-203
Andrei I. Pozniakovsky, Dmitry A. Knorre, Olga V. Markova, Anthony A. Hyman, Vladimir P. Skulachev, Fedor F. Severin
Role of mitochondria in the pheromone- and amiodarone-induced programmed death of yeast.
J Cell Biol, 168(2) 257-269 (2005)

2004

Michael Hiller, Klaus Huse, Karol Szafranski, Niels Jahn, Jochen Hampe, Stefan Schreiber, Rolf Backofen, Matthias Platzer
Widespread occurrence of alternative splicing at NAGNAG acceptors contributes to proteome plasticity.
Nat Genet, 36(12) 1255-1257 (2004)
Henry Hess, Jens-Christian Röper, Stephan W. Grill, Michael R Koelle
RGS-7 completes a receptor-independent heterotrimeric G protein cycle to asymmetrically regulate mitotic spindle positioning in C. elegans.
Cell, 119(2) 209-218 (2004)
Karsten Kruse, Periklis Pantazis, Tobias Bollenbach, Frank Jülicher, Marcos González-Gaitán
Dpp gradient formation by dynamin-dependent endocytosis: receptor trafficking and the diffusion model.
Development, 131(19) 4843-4856 (2004)
Carsten Schnatwinkel, Savvas Christoforidis, Margaret R Lindsay, Sandrine Uttenweiler-Joseph, Matthias Wilm, Robert G. Parton, Marino Zerial
The Rab5 effector Rabankyrin-5 regulates and coordinates different endocytic mechanisms.
PLoS Biol, 2(9) 261-261 (2004)
Carrie R. Cowan, Anthony A. Hyman
Centrosomes direct cell polarity independently of microtubule assembly in C. elegans embryos.
Nature, 431(7004) 92-96 (2004)
Lucas Pelkmans, Thomas Bürli, Marino Zerial, Ari Helenius
Caveolin-stabilized membrane domains as multifunctional transport and sorting devices in endocytic membrane traffic.
Cell, 118(6) 767-780 (2004)
Jan Huisken, Jim Swoger, Filippo Del Bene, Jochen Wittbrodt, Ernst H K Stelzer
Optical sectioning deep inside live embryos by selective plane illumination microscopy.
Science, 305(5686) 1007-1009 (2004)
Marta Miaczynska, Lucas Pelkmans, Marino Zerial
Not just a sink: endosomes in control of signal transduction.
Curr Opin Cell Biol, 16(4) 400-406 (2004)
Jan Brugués, Thomas Curtright, Joaquim Gomis, Luca Mezincescu
Non-relativistic strings and branes as non-linear realizations of Galilei groups
Phys Lett B, 594(1-2) 227-233 (2004)
Laurence Pelletier, Nurhan Ozlü, Eva Hannak, Carrie R. Cowan, Bianca Habermann, Martine Ruer, Thomas Müller-Reichert, Anthony A. Hyman
The Caenorhabditis elegans centrosomal protein SPD-2 is required for both pericentriolar material recruitment and centriole duplication.
Curr Biol, 14(10) 863-873 (2004)
Marta Miaczynska, Savvas Christoforidis, Angelika Giner, Anna Shevchenko, Sandrine Uttenweiler-Joseph, Bianca Habermann, Matthias Wilm, Robert G. Parton, Marino Zerial
APPL proteins link Rab5 to nuclear signal transduction via an endosomal compartment.
Cell, 116(3) 445-456 (2004)
Sorin Istrail, Granger G Sutton, Liliana Florea, Aaron L. Halpern, C M Mobarry, Ross Lippert, Brian Walenz, Hagit Shatkay, I M Dew, Jason R Miller, M J Flanigan, Nathan J Edwards, R A Bolanos, D P Fasulo, Bjarni V Halldorsson, Sridhar Hannenhalli, Russell Turner, Shibu Yooseph, Fu Lu, D R Nusskern, Bixiong Chris Shue, Xiangqun Holly Zheng, Fei Zhong, A L Delcher, Daniel H. Huson, S A Kravitz, Laurent Mouchard, Knut Reinert, K A Remington, Andrew Clark, Michael S Waterman, Evan E Eichler, Mark D Adams, Michael W Hunkapiller, Eugene W Myers, J C Venter
Whole-genome shotgun assembly and comparison of human genome assemblies.
Proc Natl Acad Sci U.S.A., 101(7) 1916-1921 (2004)
Ivo F. Sbalzarini, Anna Mezzacasa, Ari Helenius, Petros Koumoutsakos
Large-Scale Simulations of Diffusion in Cell Biology
ERCIM News, 59 69-70 (2004)
Michael Hiller, Rolf Backofen, Stephan Heymann, Anke Busch, Timo Mika Glaesser, Johann-Christoph Freytag
Efficient prediction of alternative splice forms using protein domain homology.
In Silico Biol, 4(2) 195-208 (2004)
Hanchuan Peng, Eugene W Myers
Comparing in situ mRNA expression patterns of drosophila embryos
In: Proceedings of the eighth annual international conference on Resaerch in computational molecular biology (2004), New York, ACM (2004), 157-166
Carrie R. Cowan, Anthony A. Hyman
Asymmetric cell division in C. elegans: cortical polarity and spindle positioning.
Annu Rev Cell Dev Biol, 20 427-453 (2004)
Gad M Landau, Eugene Myers, Michal Ziv-Ukelson
Two Algorithms for LCS Consecutive Suffix Alignment
In: Proceedings in Combinatorial Pattern Matching : 15th Annual Symposium, CPM 2004, Istanbul, Turkey (2004) Lecture Notes in Computer Science ; 3109, Berlin;Heidelberg, Springer (2004), 173-193

2003

Sophie Quintin, Paul E Mains, Andrea Zinke, Anthony A. Hyman
The mbk-2 kinase is required for inactivation of MEI-1/katanin in the one-cell Caenorhabditis elegans embryo.
EMBO Rep, 4(12) 1175-1181 (2003)
Eileen T. O'Toole, Kent McDonald, Jana Mäntler, J. Richard McIntosh, Anthony A. Hyman, Thomas Müller-Reichert
Morphologically distinct microtubule ends in the mitotic centrosome of Caenorhabditis elegans.
J Cell Biol, 163(3) 451-456 (2003)
Arshad Desai, Sonja Rybina, Thomas Müller-Reichert, Andrej Shevchenko, Anna Shevchenko, Anthony A. Hyman, Karen Oegema
KNL-1 directs assembly of the microtubule-binding interface of the kinetochore in C. elegans.
Genes Dev, 17(19) 2421-2435 (2003)
Martin Srayko, Sophie Quintin, Anne Schwager, Anthony A. Hyman
Caenorhabditis elegans TAC-1 and ZYG-9 form a complex that is essential for long astral and spindle microtubules.
Curr Biol, 13(17) 1506-1511 (2003)
Jim Swoger, Jan Huisken, Ernst H K Stelzer
Multiple imaging axis microscopy improves resolution for thick-sample applications.
Opt Lett, 28(18) 1654-1656 (2003)
Tiina Lehto, Marta Miaczynska, Marino Zerial, Daniel J. Müller, Fedor F. Severin
Observing the growth of individual actin filaments in cell extracts by time-lapse atomic force microscopy.
FEBS Lett, 551(1-3) 25-28 (2003)
Stephan W. Grill, Jonathon Howard, Erik Schäffer, Ernst H K Stelzer, Anthony A. Hyman
The distribution of active force generators controls mitotic spindle position.
Science, 301(5632) 518-521 (2003)
Kelly Colombo, Stephan W. Grill, Randall J Kimple, Francis S Willard, David P Siderovski, Pierre Gönczy
Translation of polarity cues into asymmetric spindle positioning in Caenorhabditis elegans embryos.
Science, 300(5627) 1957-1961 (2003)
Jonathon Howard, Anthony A. Hyman
Dynamics and mechanics of the microtubule plus end.
Nature, 422(6933) 753-758 (2003)
Mark van Breugel, David N. Drechsel, Anthony A. Hyman
Stu2p, the budding yeast member of the conserved Dis1/XMAP215 family of microtubule-associated proteins is a plus end-binding microtubule destabilizer.
J Cell Biol, 161(2) 359-369 (2003)
Thomas Müller-Reichert, Ingrid Sassoon, Eileen T. O'Toole, Maryse Romao, Anthony J. Ashford, Anthony A. Hyman, Claude Antony
Analysis of the distribution of the kinetochore protein Ndc10p in Saccharomyces cerevisiae using 3-D modeling of mitotic spindles.
Chromosoma, 111(7) 417-428 (2003)
Stéphane Gasman, Yannis Kalaidzidis, Marino Zerial
RhoD regulates endosome dynamics through Diaphanous-related Formin and Src tyrosine kinase.
Nat Cell Biol, 5(3) 195-204 (2003)
Mark D Adams, Granger G Sutton, Hamilton O Smith, Eugene W Myers, J C Venter
The independence of our genome assemblies.
Proc Natl Acad Sci U.S.A., 100(6) 3025-3026 (2003)
A Bernardo Carvalho, Maria D Vibranovski, Joseph W Carlson, Susan E Celniker, Roger A Hoskins, Gerald M Rubin, Granger G Sutton, Mark D Adams, Eugene W Myers, Andrew Clark
Y chromosome and other heterochromatic sequences of the Drosophila melanogaster genome: how far can we go?
Genetica, 117(2-3) 227-237 (2003)
Matthew Kirkham, Thomas Müller-Reichert, Karen Oegema, Stephan W. Grill, Anthony A. Hyman
SAS-4 is a C. elegans centriolar protein that controls centrosome size.
Cell, 112(4) 575-587 (2003)
Jan Brugués, Joaquim Gomis, T. Mateos, T. Ramirez
Commutative and noncommutative= 2 SYM in (2+ 1) from wrapped D6-branes
Classical And Quantum Gravity, 20 null-null (2003)
Eric C. Lai, Pavel Tomancák, Robert W Williams, Gerald M Rubin
Computational identification of Drosophila microRNA genes.
Genome Biol, 4(7) 42-42 (2003)
Gene Myers, Richard Durbin
A table-driven, full-sensitivity similarity search algorithm.
J Comput Biol, 10(2) 103-117 (2003)
Rafael Mattera, Cecilia N Arighi, Robert Lodge, Marino Zerial, Juan S Bonifacino
Divalent interaction of the GGAs with the Rabaptin-5-Rabex-5 complex.
EMBO J, 22(1) 78-88 (2003)

2002

Jan Brugués, Joaquim Gomis, T. Mateos, T. Ramirez
Supergravity Duals of Noncommutative Wrapped D6 Branes and Supersymmetry without Supersymmetry
J High Energy Phys, 2002 null-null (2002)
Manuel Mendoza, Anthony A. Hyman, Michael Glotzer
GTP binding induces filament assembly of a recombinant septin.
Curr Biol, 12(21) 1858-1863 (2002)
Robert A Holt, G Mani Subramanian, Aaron L. Halpern, Granger G Sutton, Rosane Charlab, D R Nusskern, Patrick Wincker, Andrew Clark, José M C Ribeiro, Ron Wides, Steven L Salzberg, Brendan Loftus, Mark D Yandell, William H Majoros, Douglas B Rusch, Zhongwu Lai, Cheryl L Kraft, Josep F Abril, Veronique Anthouard, Peter Arensburger, Peter W Atkinson, Holly Baden, Veronique de Berardinis, Danita Baldwin, Vladimir Benes, Jim Biedler, Claudia Blass, R A Bolanos, Didier Boscus, Mary Barnstead, Shuang Cai, Angela Center, Kabir Chaturverdi, George K Christophides, Mathew A Chrystal, Michele Clamp, Anibal Cravchik, Val Curwen, Ali Dana, A L Delcher, I M Dew, Cheryl A Evans, M J Flanigan, Anne Grundschober-Freimoser, Lisa Friedli, Zhiping Gu, Ping Guan, Roderic Guigo, Maureen E Hillenmeyer, Susanne L Hladun, James R Hogan, Young S Hong, Jeffrey Hoover, Olivier Jaillon, Zhaoxi Ke, Chinnappa Kodira, Elena Kokoza, Anastasios Koutsos, Ivica Letunic, Alex Levitsky, Yong Liang, Jhy-Jhu Lin, Neil F Lobo, John R Lopez, Joel A Malek, Tina C McIntosh, Stephan Meister, Jason Miller, C M Mobarry, Emmanuel Mongin, Sean D Murphy, David A O'Brochta, Cynthia Pfannkoch, Rong Qi, Megan A Regier, K A Remington, Hongguang Shao, Maria V Sharakhova, Cynthia D Sitter, Jyoti Shetty, Thomas J Smith, Renee Strong, Jingtao Sun, Dana Thomasova, Lucas Q Ton, Pantelis Topalis, Zhijian Tu, Maria F Unger, Brian Walenz, Aihui Wang, Jian Wang, Mei Wang, Xuelan Wang, Kerry J Woodford, Jennifer R Wortman, Martin Wu, Alison Yao, Evgeny M Zdobnov, Hongyu Zhang, Qi Zhao, Senming Zhao, Shiaoping C Zhu, Igor Zhimulev, Mario Coluzzi, Alessandra della Torre, Charles W Roth, Christos Louis, Francis Kalush, Richard J Mural, Eugene W Myers, Mark D Adams, Hamilton O Smith, Samuel Broder, Melissa Gardner, Claire M Fraser, Ewan Birney, Peer Bork, Paul T Brey, J Craig Venter, Jean Weissenbach, Fotis C Kafatos, Frank H Collins, Stephen L Hoffman
The genome sequence of the malaria mosquito Anopheles gambiae.
Science, 298(5591) 129-149 (2002)
Daniel H. Huson, Knut Reinert, Eugene W Myers
The greedy path-merging algorithm for contig scaffolding
Journal of the ACM (JACM), 49(5) 603-615 (2002)
Jim Swoger, Manuel Martínez-Corral, Jan Huisken, Ernst H K Stelzer
Optical scanning holography as a technique for high-resolution three-dimensional biological microscopy.
J Opt Soc Am A Opt Image Sci Vis, 19(9) 1910-1918 (2002)
Jeffrey A Bailey, Zhiping Gu, Royden A Clark, Knut Reinert, Rhea V Samonte, Stuart Schwartz, Mark D Adams, Eugene W Myers, Peter W Li, Evan E Eichler
Recent segmental duplications in the human genome.
Science, 297(5583) 1003-1007 (2002)
Jan Huisken, Ernst H K Stelzer
Optical levitation of absorbing particles with a nominally Gaussian laser beam.
Opt Lett, 27(14) 1223-1225 (2002)
Kazuhisa Kinoshita, Bianca Habermann, Anthony A. Hyman
XMAP215: a key component of the dynamic microtubule cytoskeleton.
Trends Cell Biol, 12(6) 267-273 (2002)
Susanne Kaitna, Heinke Schnabel, Ralf Schnabel, Anthony A. Hyman, Michael Glotzer
A ubiquitin C-terminal hydrolase is required to maintain osmotic balance and execute actin-dependent processes in the early C. elegans embryo.
J Cell Sci, 115(Pt 11) 2293-2302 (2002)
Eva Hannak, Karen Oegema, Matthew Kirkham, Pierre Gönczy, Bianca Habermann, Anthony A. Hyman
The kinetically dominant assembly pathway for centrosomal asters in Caenorhabditis elegans is gamma-tubulin dependent.
J Cell Biol, 157(4) 591-602 (2002)
Ekaterini Panopoulou, David J. Gillooly, Jeffrey L Wrana, Marino Zerial, Harald Stenmark, Carol Murphy, Theodore Fotsis
Early endosomal regulation of Smad-dependent signaling in endothelial cells.
J Biol Chem, 277(20) 18046-18052 (2002)
Richard J Mural, Mark D Adams, Eugene W Myers, Hamilton O Smith, George L Gabor Miklos, Ron Wides, Aaron L. Halpern, Peter W Li, Granger G Sutton, Joe Nadeau, Steven L Salzberg, Robert A Holt, Chinnappa Kodira, Fu Lu, Lin Chen, Zuoming Deng, Carlos C Evangelista, Weiniu Gan, Thomas J Heiman, Jiayin Li, Zhenya Li, Gennady V Merkulov, Natalia V Milshina, Ashwinikumar K Naik, Rong Qi, Bixiong Chris Shue, Aihui Wang, Jian Wang, Xin Wang, Xianghe Yan, Jane Ye, Shibu Yooseph, Qi Zhao, Liansheng Zheng, Shiaoping C Zhu, Kendra Biddick, R A Bolanos, A L Delcher, I M Dew, D P Fasulo, M J Flanigan, Daniel H. Huson, S A Kravitz, Jason R Miller, C M Mobarry, Knut Reinert, K A Remington, Qinyu Zhang, Xiangqun H Zheng, D R Nusskern, Zhongwu Lai, Yiding Lei, Wenyan Zhong, Alison Yao, Ping Guan, Rui-Ru Ji, Zhiping Gu, Zhen-Yuan Wang, Fei Zhong, Chunlin Xiao, Chia-Chien Chiang, Mark D Yandell, Jennifer R Wortman, Peter G Amanatides, Susanne L Hladun, Eric C Pratts, Jeffery E Johnson, Kristina L Dodson, Kerry J Woodford, Cheryl A Evans, Barry Gropman, Douglas B Rusch, Eli Venter, Mei Wang, Thomas J Smith, Jarrett T Houck, Donald E Tompkins, Charles Haynes, Debbie Jacob, Soo H Chin, David R Allen, Carl E Dahlke, Robert Sanders, Kelvin Li, Xiangjun Liu, Alex Levitsky, William H Majoros, Quan Chen, Ashley C Xia, John R Lopez, Michael T Donnelly, Matthew H Newman, Anna Glodek, Cheryl L Kraft, Marc Nodell, Feroze Ali, Hui-Jin An, Danita Baldwin-Pitts, Karen Y Beeson, Shuang Cai, Mark Carnes, Amy Carver, Parris M Caulk, Angela Center, Yen-Hui Chen, Ming-Lai Cheng, My D Coyne, Michelle Crowder, Steven Danaher, Lionel B Davenport, Raymond Desilets, Susanne M Dietz, Lisa Doup, Patrick Dullaghan, Steven Ferriera, Carl R Fosler, Harold C Gire, Andres Gluecksmann, Jeannine D Gocayne, Jonathan Gray, Brit Hart, Jason Haynes, Jeffrey Hoover, Tim Howland, Chinyere Ibegwam, Mena Jalali, David Johns, Leslie Kline, Daniel S Ma, Steven MacCawley, Anand Magoon, Felecia Mann, David May, Tina C McIntosh, Somil Mehta, Linda Moy, Mee C Moy, Brian J Murphy, Sean D Murphy, Keith A Nelson, Zubeda Nuri, Kimberly A Parker, Alexandre C Prudhomme, Vinita N Puri, Hina Qureshi, John C Raley, Matthew S Reardon, Megan A Regier, Yu-Hui C Rogers, Deanna L Romblad, Jakob Schutz, John L Scott, Richard Scott, Cynthia D Sitter, Michella Smallwood, Andrew Sprague, Erin Stewart, Renee Strong, Ellen Suh, Karena Sylvester, Reginald Thomas, Ni Ni Tint, Christopher Tsonis, Gary Wang, George Wang, Monica S Williams, Sherita M Williams, Sandra M Windsor, Keriellen Wolfe, Mitchell M Wu, Jayshree Zaveri, Kabir Chaturvedi, Andrei E Gabrielian, Zhaoxi Ke, Jingtao Sun, Gangadharan Subramanian, J Craig Venter, Cynthia Pfannkoch, Mary Barnstead, Lisa D Stephenson
A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome.
Science, 296(5573) 1661-1671 (2002)
Eugene W Myers, Granger G Sutton, Hamilton O Smith, Mark D Adams, J Craig Venter
On the sequencing and assembly of the human genome.
Proc Natl Acad Sci U.S.A., 99(7) 4145-4146 (2002)
Fedor F. Severin, Anthony A. Hyman
Pheromone induces programmed cell death in S. cerevisiae.
Curr Biol, 12(7) 233-235 (2002)
Stefano de Renzis, Birte Sönnichsen, Marino Zerial
Divalent Rab effectors regulate the sub-compartmental organization and sorting of early endosomes.
Nat Cell Biol, 4(2) 124-133 (2002)
Ivo F. Sbalzarini
Diffusion in the Endoplasmic Reticulum
Diploma Thesis,ETH Zurich, Department of Computer Science, Zurich, Switzerland (2002)
Pavel Tomancák, Amy Beaton, Richard Weiszmann, Elaine Kwan, ShengQiang Shu, Suzanna E Lewis, Stephen Richards, Michael Ashburner, Volker Hartenstein, Susan E Celniker, Gerald M Rubin
Systematic determination of patterns of gene expression during Drosophila embryogenesis.
Genome Biol, 3(12) 88-88 (2002)
Marta Miaczynska, Marino Zerial
Mosaic organization of the endocytic pathway.
Exp Cell Res, 272(1) 8-14 (2002)
Benjamin P Berman, Pavel Tomancák, Yutaka Nibu, Barret D Pfeiffer, Susan E Celniker, Michael Levine, Gerald M Rubin, Michael B Eisen
Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome.
Proc Natl Acad Sci U.S.A., 99(2) 757-762 (2002)
Roger A Hoskins, Christopher D Smith, Joseph W Carlson, A Bernardo Carvalho, Aaron L. Halpern, Joshua S Kaminker, Cameron Kennedy, Chris J Mungall, Beth A Sullivan, Granger G Sutton, Jiro C Yasuhara, Barbara T Wakimoto, Eugene W Myers, Susan E Celniker, Gerald M Rubin, Gary H Karpen
Heterochromatic sequences in a Drosophila whole-genome shotgun assembly.
Genome Biol, 3(12) 85-85 (2002)
Susan E Celniker, David A Wheeler, Brent Kronmiller, Joseph W Carlson, Aaron L. Halpern, Sandeep Patel, Mark Adams, Mark Champe, Shannon P Dugan, Erwin Frise, Ann Hodgson, Reed A George, Roger A Hoskins, Todd R Laverty, Donna M Muzny, Catherine R Nelson, Joanne M Pacleb, Soo Park, Barret D Pfeiffer, Stephen Richards, Erica J Sodergren, Robert R Svirskas, Paul E Tabor, Kenneth Wan, Mark Stapleton, Granger G Sutton, Craig Venter, George Weinstock, Steven E Scherer, Eugene W Myers, Richard A Gibbs, Gerald M Rubin
Finishing a whole-genome shotgun: release 3 of the Drosophila melanogaster euchromatic genome sequence.
Genome Biol, 3(12) Art. No. research0079.1–0079.14 (2002)

2001

Eva Hannak, Matthew Kirkham, Anthony A. Hyman, Karen Oegema
Aurora-A kinase is required for centrosome maturation in Caenorhabditis elegans.
J Cell Biol, 155(7) 1109-1116 (2001)
Kazuhisa Kinoshita, Isabelle Arnal, Arshad Desai, David N. Drechsel, Anthony A. Hyman
Reconstitution of physiological microtubule dynamics using purified components.
Science, 294(5545) 1340-1343 (2001)
Fedor F. Severin, Anthony A. Hyman, Simonetta Piatti
Correct spindle elongation at the metaphase/anaphase transition is an APC-dependent event in budding yeast.
J Cell Biol, 155(5) 711-718 (2001)
Pierre Gönczy, Jean-Michel Bellanger, Matthew Kirkham, Andrei Pozniakovski, Karine Baumer, Jennifer B. Phillips, Anthony A. Hyman
zyg-8, a gene required for spindle positioning in C. elegans, encodes a doublecortin-related kinase that promotes microtubule assembly.
Dev Cell, 1(3) 363-375 (2001)
Roger Lippé, Marta Miaczynska, Vladimir Rybin, Anja Runge, Marino Zerial
Functional synergy between Rab5 effector Rabaptin-5 and exchange factor Rabex-5 when physically associated in a complex.
Mol Biol Cell, 12(7) 2219-2228 (2001)
Carol Murphy, Rainer Saffrich, Jean-Christophe Olivo-Marin, Angelika Giner, Wilhelm Ansorge, Theodore Fotsis, Marino Zerial
Dual function of rhoD in vesicular movement and cell motility.
Eur J Cell Biol, 80(6) 391-398 (2001)
Karen Oegema, Arshad Desai, Sonja Rybina, Matthew Kirkham, Anthony A. Hyman
Functional analysis of kinetochore assembly in Caenorhabditis elegans.
J Cell Biol, 153(6) 1209-1226 (2001)
Heike Esters, Kirill Alexandrov, Andrei Iakovenko, Tania Ivanova, Nicolas Thomä, Vladimir Rybin, Marino Zerial, Axel J. Scheidig, Roger S. Goody
Vps9, Rabex-5 and DSS4: proteins with weak but distinct nucleotide-exchange activities for Rab proteins.
J Mol Biol, 310(1) 141-156 (2001)
Sandrine Uttenweiler-Joseph, Gitte Neubauer, Savvas Christoforidis, Marino Zerial, Matthias Wilm
Automated de novo sequencing of proteins using the differential scanning technique.
Proteomics, 1(5) 668-682 (2001)
Fedor F. Severin, Bianca Habermann, Tim Huffaker, Anthony A. Hyman
Stu2 promotes mitotic spindle elongation in anaphase.
J Cell Biol, 153(2) 435-442 (2001)
Tom Van de Putte, An Zwijsen, Olivier Lonnoy, Vladimir Rybin, Miranda Cozijnsen, Annick Francis, Veerle Baekelandt, Christine A. Kozak, Marino Zerial, Danny Huylebroeck
Mice with a homozygous gene trap vector insertion in mgcRacGAP die during pre-implantation development.
Mech Dev, 102(1-2) 33-44 (2001)
Stephan W. Grill, Pierre Gönczy, Ernst H K Stelzer, Anthony A. Hyman
Polarity controls forces governing asymmetric spindle positioning in the Caenorhabditis elegans embryo.
Nature, 409(6820) 630-633 (2001)
Marino Zerial, Heidi M. McBride
Rab proteins as membrane organizers.
Nat Rev Mol Cell Biol, 2(2) 107-117 (2001)
Andrei V. Popov, Andrei I. Pozniakovsky, Isabelle Arnal, Claude Antony, Anthony J. Ashford, Kazuhisa Kinoshita, Regis Tournebize, Anthony A. Hyman, Eric Karsenti
XMAP215 regulates microtubule dynamics through two distinct domains.
EMBO J, 20(3) 397-410 (2001)
J C Venter, M D Adams, E W Myers, P W Li, Richard J Mural, Granger G Sutton, H O Smith, Mark D Yandell, Cheryl A Evans, Robert A Holt, Jeannine D Gocayne, Peter G Amanatides, R M Ballew, Daniel H. Huson, Jennifer R Wortman, Qinyu Zhang, Chinnappa Kodira, X H Zheng, L Chen, M Skupski, G Subramanian, P D Thomas, J Zhang, George L Gabor Miklos, C Nelson, Samuel Broder, Andrew Clark, Joe Nadeau, V A McKusick, N Zinder, A J Levine, R J Roberts, M Simon, C Slayman, Michael W Hunkapiller, R A Bolanos, A L Delcher, I M Dew, D P Fasulo, M J Flanigan, Liliana Florea, Aaron L. Halpern, Sridhar Hannenhalli, S A Kravitz, S Levy, C M Mobarry, Knut Reinert, K A Remington, J Abu-Threideh, E M Beasley, Kendra Biddick, V Bonazzi, R C Brandon, M Cargill, I Chandramouliswaran, Rosane Charlab, Kabir Chaturvedi, Zuoming Deng, V Di Francesco, P Dunn, K Eilbeck, Carlos C Evangelista, Andrei E Gabrielian, Weiniu Gan, W Ge, F Gong, Z Gu, Ping Guan, T J Heiman, M E Higgins, Rui-Ru Ji, Z Ke, K A Ketchum, Z Lai, Y Lei, Z Li, J Li, Y Liang, X Lin, F Lu, Gennady V Merkulov, Natalia V Milshina, H M Moore, Ashwinikumar K Naik, V A Narayan, B Neelam, D R Nusskern, Douglas B Rusch, Steven L Salzberg, W Shao, Bixiong Chris Shue, J Sun, Z Wang, A Wang, X Wang, J Wang, M Wei, Ron Wides, C Xiao, C Yan, Alison Yao, Jane Ye, M Zhan, W Zhang, H Zhang, Q Zhao, L Zheng, F Zhong, W Zhong, S Zhu, Senming Zhao, D Gilbert, S Baumhueter, G Spier, Crystal N. Carter, Anibal Cravchik, T Woodage, F Ali, Hui-Jin An, A Awe, Danita Baldwin, Holly Baden, Mary Barnstead, I Barrow, Karen Y Beeson, D Busam, Amy Carver, Angela Center, M L Cheng, L Curry, Steven Danaher, Lionel B Davenport, Raymond Desilets, Susanne M Dietz, Kristina L Dodson, Lisa Doup, Steven Ferriera, N Garg, Andres Gluecksmann, Brit Hart, J Haynes, C Haynes, C Heiner, Susanne L Hladun, D Hostin, Jarrett T Houck, Tim Howland, Chinyere Ibegwam, J Johnson, Francis Kalush, Leslie Kline, S Koduru, A Love, F Mann, David May, S McCawley, T McIntosh, I McMullen, M Moy, L Moy, B Murphy, K Nelson, Cynthia Pfannkoch, Eric C Pratts, V Puri, Hina Qureshi, Matthew S Reardon, R Rodriguez, Y H Rogers, Deanna L Romblad, B Ruhfel, R Scott, Cynthia D Sitter, Michella Smallwood, E Stewart, Renee Strong, E Suh, R Thomas, Ni Ni Tint, S Tse, C Vech, G Wang, J Wetter, S Williams, M Williams, Sandra M Windsor, E Winn-Deen, Keriellen Wolfe, Jayshree Zaveri, K Zaveri, Josep F Abril, R Guigó, M J Campbell, K V Sjolander, B Karlak, A Kejariwal, H Mi, B Lazareva, T Hatton, A Narechania, K Diemer, A Muruganujan, N Guo, S Sato, V Bafna, Sorin Istrail, Ross Lippert, R Schwartz, Brian Walenz, Shibu Yooseph, D Allen, A Basu, J Baxendale, L Blick, M Caminha, J Carnes-Stine, Parris M Caulk, Y H Chiang, My D Coyne, Carl E Dahlke, A Mays, M Dombroski, Michael T Donnelly, D Ely, S Esparham, Carl R Fosler, Harold C Gire, S Glanowski, K Glasser, Anna Glodek, M Gorokhov, K Graham, Barry Gropman, M Harris, J Heil, S Henderson, Jeffrey Hoover, D Jennings, C M Jordan, J Jordan, J Kasha, L Kagan, C Kraft, Alex Levitsky, M Lewis, X Liu, J Lopez, D Ma, William H Majoros, J McDaniel, S Murphy, Matthew H Newman, T Nguyen, N Nguyen, Marc Nodell, S Pan, J Peck, M Peterson, W Rowe, Robert Sanders, J Scott, M Simpson, T Smith, Andrew Sprague, T Stockwell, R Turner, E Venter, M Wang, M Wen, D Wu, M Wu, Ashley C Xia, A Zandieh, X Zhu
The sequence of the human genome.
Science, 291(5507) 1304-1351 (2001)
Pierre Gönczy, Stephan W. Grill, Ernst H K Stelzer, Matthew Kirkham, Anthony A. Hyman
Spindle positioning during the asymmetric first cell division of Caenorhabditis elegans embryos.
Novartis Found Symp, 237 164-175 (2001)
Gene Myers
Comparing sequence scaffolds
In: Proceedings of the fifth annual international conference on Computational biology (2001), New York, ACM (2001), 224-230
Gene Myers
Optimally separating sequences.
Genome Inform, 12 165-174 (2001)
Ivo F. Sbalzarini, Sibylle D. Müller, Petros Koumoutsakos, Georges-Henri Cottet
Evolution Strategies for Computational and Experimental Fluid Dynamics Applications
In: Proceedings of the Genetic and Evolutionary Computation Conference (GECCO 2001) (2001), New York, ACM (2001), 1-8
Ivo F. Sbalzarini, Sibylle D. Müller, Petros Koumoutsakos
Microchannel Optimization Using Multiobjective Evolution Strategies
(2001) Lecture Notes in Computer Science, New York, Springer (2001), 516-530
Erik Nielsen, Fedor F. Severin, Anthony A. Hyman, Marino Zerial
In vitro reconstitution of endosome motility along microtubules
In: Kinesin protocols. (Eds.) Isabelle Vernos Methods in molecular biology ; 164.,Totowa, USA,Humana Press (2001),133-146 Ch. 12
Daniel H. Huson, Aaron L. Halpern, Zhongwu Lai, Eugene W Myers
Comparing Assemblies Using Fragments and Mate-Pairs
In: Proceedings in Algorithms in Bioinformatics : First International Workshop, WABI 2001 Århus Denmark (2001) Lecture notes in computer science ; 2149, Berlin;Heidelberg, Springer (2001), 294-306
Daniel H. Huson, Knut Reinert, S A Kravitz, K A Remington, A L Delcher, I M Dew, M J Flanigan, Aaron L. Halpern, Z Lai, C M Mobarry, Granger G Sutton, E W Myers
Design of a compartmentalized shotgun assembler for the human genome.
Bioinformatics, 17 Suppl 1 132-139 (2001)
Harald Stenmark, Marino Zerial
Molecular mechanisms of membrane fusion in the endocytic pathway
In: Endocytosis. (Eds.) Mark Marsh Frontiers in molecular biology ; 36.,Oxford, UK,Oxford University Press (2001),94-110 Ch. 5
Savvas Christoforidis, Marino Zerial
Purification of EEA1 from bovine brain cytosol using Rab5 affinity chromatography and activity assays
In: GTPases involved in vesicular traffic. (Eds.) William E. Balch Methods in enzymology ; 329.,Amsterdam, Netherlands,Academic Press (2001),120-132 Ch. 14
Kai Simons, Marino Zerial
Traffic of Proteins and Compartmentalization of Eukaryotic Cells
In: Frontiers of Life, Volume II - Cells and Organisms. (Eds.) David C. Baltimore, Renato Dulbecco,Amsterdam, Netherlands,Academic Press (2001),43-54
Sibylle D. Müller, Ivo F. Sbalzarini, Jens H. Walther, Petros Koumoutsakos
Evolution Strategies for the Optimization of Microdevices
In: Proceedings of the Congress on Evolutionary Computation (CEC 2001) (2001), Piscataway, N.J., IEEE (2001), 302-309
Roger Lippé, Hisanori Horiuchi, Anja Runge, Marino Zerial
Expression, purification, and characterization of Rab5 effector complex, rabaptin-5/rabex-5
In: GTPases involved in vesicular traffic. (Eds.) William E. Balch Methods in enzymology ; 329.,Amsterdam, Netherlands,Elsevier (2001),132-145
Jürg Zumbrunn, Kazuhisa Kinoshita, Anthony A. Hyman, Inke S. Näthke
Binding of the adenomatous polyposis coli protein to microtubules increases microtubule stability and is regulated by GSK3 beta phosphorylation.
Curr Biol, 11(1) 44-49 (2001)
Torsten Wittmann, Anthony A. Hyman, Arshad Desai
The spindle: a dynamic assembly of microtubules and motors.
Nat Cell Biol, 3(1) 28-34 (2001)

2000

Pierre Gönczy, Christophe J. Echeverri, Karen Oegema, A Coulson, Steven J. M. Jones, Richard R. Copley, John Duperon, Jeffrey Oegema, Michael Brehm, E Cassin, Eva Hannak, Matthew Kirkham, Silke Pichler, Kathrin Flohrs, A Goessen, Sebastian Leidel, Anne-Marie Alleaume, Cecilie Martin, Nurhan Ozlü, Peer Bork, Anthony A. Hyman
Functional genomic analysis of cell division in C. elegans using RNAi of genes on chromosome III.
Nature, 408(6810) 331-336 (2000)
Letizia Lanzetti, Vladimir Rybin, Maria Grazia Malabarba, Savvas Christoforidis, Giorgio Scita, Marino Zerial, Pier Paolo Di Fiore
The Eps8 protein coordinates EGF receptor signalling through Rac and trafficking through Rab5.
Nature, 408(6810) 374-377 (2000)
Erik Nielsen, Savvas Christoforidis, Sandrine Uttenweiler-Joseph, Marta Miaczynska, Frederique Dewitte, Matthias Wilm, Bernard Hoflack, Marino Zerial
Rabenosyn-5, a novel Rab5 effector, is complexed with hVPS45 and recruited to endosomes through a FYVE finger domain.
J Cell Biol, 151(3) 601-612 (2000)
Sanna Lehtonen, Ari Ora, Vesa M Olkkonen, Lin Geng, Marino Zerial, Stefan Somlo, Eero Lehtonen
In vivo interaction of the adapter protein CD2-associated protein with the type 2 polycystic kidney disease protein, polycystin-2.
J Biol Chem, 275(42) 32888-32893 (2000)
Pavel Tomancák, Fabio Piano, Veit Riechmann, Kristin C. Gunsalus, Kenneth J. Kemphues, Anne Ephrussi
A Drosophila melanogaster homologue of Caenorhabditis elegans par-1 acts at an early step in embryonic-axis formation.
Nat Cell Biol, 2(7) 458-460 (2000)
V Jantsch-Plunger, Pierre Gönczy, Alper Romano, Heinke Schnabel, Danielle Hamill, Ralf Schnabel, Anthony A. Hyman, Michael Glotzer
CYK-4: A Rho family gtpase activating protein (GAP) required for central spindle formation and cytokinesis.
J Cell Biol, 149(7) 1391-1404 (2000)
Birte Sönnichsen, Stefano de Renzis, Erik Nielsen, Jens Rietdorf, Marino Zerial
Distinct membrane domains on endosomes in the recycling pathway visualized by multicolor imaging of Rab4, Rab5, and Rab11.
J Cell Biol, 149(4) 901-914 (2000)
Isabelle Arnal, Eric Karsenti, Anthony A. Hyman
Structural transitions at microtubule ends correlate with their dynamic properties in Xenopus egg extracts.
J Cell Biol, 149(4) 767-774 (2000)
Silke Pichler, Pierre Gönczy, Heinke Schnabel, Andrei I. Pozniakovsky, Anthony J. Ashford, Ralf Schnabel, Anthony A. Hyman
OOC-3, a novel putative transmembrane protein required for establishment of cortical domains and spindle orientation in the P(1) blastomere of C. elegans embryos.
Development, 127(10) 2063-2073 (2000)
F. J. Ahmad, Jessica Hughey, Torsten Wittmann, Anthony A. Hyman, Marion Greaser, Peter W. Baas
Motor proteins regulate force interactions between microtubules and microfilaments in the axon.
Nat Cell Biol, 2(5) 276-280 (2000)
Anthony A. Hyman
Centrosomes: Sic transit gloria centri.
Curr Biol, 10(7) 276-278 (2000)
Savvas Christoforidis, Marino Zerial
Purification and identification of novel Rab effectors using affinity chromatography.
Methods, 20(4) 403-410 (2000)
E W Myers, Granger G Sutton, A L Delcher, I M Dew, D P Fasulo, M J Flanigan, S A Kravitz, C M Mobarry, Knut Reinert, K A Remington, Eric Anson, R A Bolanos, H H Chou, C M Jordan, Aaron L. Halpern, S Lonardi, E M Beasley, R C Brandon, L Chen, P J Dunn, Z Lai, Y Liang, D R Nusskern, M Zhan, Qinyu Zhang, X Zheng, G M Rubin, M D Adams, J C Venter
A whole-genome assembly of Drosophila.
Science, 287(5461) 2196-2204 (2000)
M D Adams, Susan E Celniker, Robert A Holt, Cheryl A Evans, Jeannine D Gocayne, Peter G Amanatides, Steven E Scherer, P W Li, Roger A Hoskins, R F Galle, Reed A George, S E Lewis, Stephen Richards, Michael Ashburner, S Henderson, Granger G Sutton, Jennifer R Wortman, Mark D Yandell, Qinyu Zhang, L X Chen, R C Brandon, Y H Rogers, R G Blazej, Mark Champe, B D Pfeiffer, Kenneth Wan, C Doyle, E G Baxter, G Helt, C R Nelson, G L Gabor, Josep F Abril, A Agbayani, Hui-Jin An, C Andrews-Pfannkoch, Danita Baldwin, R M Ballew, A Basu, J Baxendale, L Bayraktaroglu, E M Beasley, Karen Y Beeson, P V Benos, Benjamin P Berman, D Bhandari, S Bolshakov, D Borkova, M R Botchan, J Bouck, P Brokstein, P Brottier, K C Burtis, D Busam, H Butler, E Cadieu, Angela Center, I Chandra, J M Cherry, S Cawley, Carl E Dahlke, Lionel B Davenport, P Davies, B de Pablos, A L Delcher, Zuoming Deng, A Mays, I M Dew, Susanne M Dietz, Kristina L Dodson, Lisa Doup, M Downes, S Dugan-Rocha, B C Dunkov, P Dunn, K J Durbin, Carlos C Evangelista, C Ferraz, Steven Ferriera, W Fleischmann, Carl R Fosler, Andrei E Gabrielian, N Garg, W M Gelbart, K Glasser, Anna Glodek, F Gong, J H Gorrell, Z Gu, Ping Guan, M Harris, N L Harris, D Harvey, T J Heiman, J R Hernandez, Jarrett T Houck, D Hostin, K A Houston, Tim Howland, M H Wei, Chinyere Ibegwam, Mena Jalali, Francis Kalush, Gary H Karpen, Z Ke, J A Kennison, K A Ketchum, B E Kimmel, Chinnappa Kodira, C Kraft, S A Kravitz, D Kulp, Z Lai, P Lasko, Y Lei, Alex Levitsky, J Li, Z Li, Y Liang, X Lin, X Liu, B Mattei, T C McIntosh, M P McLeod, D McPherson, Gennady V Merkulov, Natalia V Milshina, C M Mobarry, J Morris, A Moshrefi, S M Mount, M Moy, B Murphy, L Murphy, Donna M Muzny, D L Nelson, D R Nelson, K A Nelson, K Nixon, D R Nusskern, Joanne M Pacleb, M Palazzolo, G S Pittman, S Pan, J Pollard, V Puri, M G Reese, Knut Reinert, K A Remington, R D Saunders, F Scheeler, H Shen, Bixiong Chris Shue, I Sidén-Kiamos, M Simpson, M Skupski, T Smith, E Spier, A C Spradling, Mark Stapleton, Renee Strong, E Sun, Robert R Svirskas, C Tector, R Turner, E Venter, A H Wang, X Wang, Z Y Wang, D A Wassarman, George Weinstock, Jean Weissenbach, S M Williams, S M WoodageT, K C Worley, D Wu, S Yang, Q A Yao, Jane Ye, R F Yeh, J S Zaveri, M Zhan, G Zhang, Q Zhao, L Zheng, X H Zheng, F N Zhong, W Zhong, X Zhou, S Zhu, X Zhu, H O Smith, Richard A Gibbs, E W Myers, G M Rubin, J C Venter
The genome sequence of Drosophila melanogaster.
Science, 287(5461) 2185-2195 (2000)
Mariantonietta Rubino, Marta Miaczynska, Roger Lippé, Marino Zerial
Selective membrane recruitment of EEA1 suggests a role in directional transport of clathrin-coated vesicles to early endosomes.
J Biol Chem, 275(6) 3745-3748 (2000)

1999

Erik Nielsen, Fedor F. Severin, Jonathan M Backer, Anthony A. Hyman, Marino Zerial
Rab5 regulates motility of early endosomes on microtubules.
Nat Cell Biol, 1(6) 376-382 (1999)
Pierre Gönczy, Silke Pichler, Matthew Kirkham, Anthony A. Hyman
Cytoplasmic dynein is required for distinct aspects of MTOC positioning, including centrosome separation, in the one cell stage Caenorhabditis elegans embryo.
J Cell Biol, 147(1) 135-150 (1999)
Arshad Desai, Anthony A. Hyman
Microtubule cytoskeleton: No longer an also Ran.
Curr Biol, 9(18) 704-707 (1999)
Heidi M. McBride, Vladimir Rybin, Carol Murphy, Angelika Giner, Rohan Teasdale, Marino Zerial
Oligomeric complexes link Rab5 effectors with NSF and drive membrane fusion via interactions between EEA1 and syntaxin 13.
Cell, 98(3) 377-386 (1999)
Savvas Christoforidis, Marta Miaczynska, Keith Ashman, Matthias Wilm, Liyun Zhao, Shu-Chin Yip, Michael D. Waterfield, Jonathan M Backer, Marino Zerial
Phosphatidylinositol-3-OH kinases are Rab5 effectors.
Nat Cell Biol, 1(4) 249-252 (1999)
Gene Myers
A fast bit-vector algorithm for approximate string matching based on dynamic programming
Journal of the ACM (JACM), 46(3) 395-415 (1999)
Gene Myers
Whole-Genome DNA Sequencing
Comput Sci Eng, 1(3) 33-43 (1999)
Jon Mulholland, James Konopka, Birgit Singer-Kruger, Marino Zerial, David Botstein
Visualization of receptor-mediated endocytosis in yeast.
Mol Biol Cell, 10(3) 799-817 (1999)
Pierre Gönczy, Heinke Schnabel, Titus Kaletta, Ana Duran Amores, Anthony A. Hyman, Ralf Schnabel
Dissection of cell division processes in the one cell stage Caenorhabditis elegans embryo by mutational analysis.
J Cell Biol, 144(5) 927-946 (1999)
Savvas Christoforidis, Heidi M. McBride, Robert D. Burgoyne, Marino Zerial
The Rab5 effector EEA1 is a core component of endosome docking.
Nature, 397(6720) 621-625 (1999)
Gene Myers
A Dataset Generator for Whole Genome Shotgun Sequencing
In: Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology (1999), Heidelberg, Germany, Intelligent Systems for Molecular Biology (1999), 202-210
Eric Anson, Gene Myers
Algorithms for Whole Genome Shotgun Sequencing
In: Proceedings of the third annual international conference on Computational molecular biology (1999), New York, ACM (1999), 1-9
Torsten Wittmann, Anthony A. Hyman
Recombinant p50/dynamitin as a tool to examine the role of dynactin in intracellular processes
In: Mitosis and meiosis. (Eds.) Conly L. Rieder Methods in cell biology ; 61.,Amsterdam, Netherlands,Academic Press (1999),137-143
Fedor F. Severin, Ken Kaplan, Peter Sorger, Anthony A. Hyman
In vitro assays for studying Saccharomyces cerevisiae kinetochore activity
In: Mitosis and meiosis. (Eds.) Conly L. Rieder Methods in cell biology ; 61.,Amsterdam, Netherlands,Academic Press (1999),145-153 Ch. 8

1998

Sanna Lehtonen, Vesa M Olkkonen, Mark Stapleton, Marino Zerial, Eero Lehtonen
HMG-17, a chromosomal non-histone protein, shows developmental regulation during organogenesis.
Int J Dev Biol, 42(6) 775-782 (1998)
Anne Simonsen, Roger Lippé, Savvas Christoforidis, Jean-Michel Gaullier, Andreas Brech, Judy Callaghan, Ban-Hock Toh, Carol Murphy, Marino Zerial, Harald Stenmark
EEA1 links PI(3)K function to Rab5 regulation of endosome fusion.
Nature, 394(6692) 494-498 (1998)
Martina Muckenthaler, Niki Gunkel, Dmitrij Frishman, Anna Cyrklaff, Pavel Tomancák, Matthias W. Hentze
Iron-regulatory protein-1 (IRP-1) is highly conserved in two invertebrate species--characterization of IRP-1 homologues in Drosophila melanogaster and Caenorhabditis elegans.
Eur J Biochem, 254(2) 230-237 (1998)
Pavel Tomancák, Antoine Guichet, Peter Zavorszky, Anne Ephrussi
Oocyte polarity depends on regulation of gurken by Vasa.
Development, 125(9) 1723-1732 (1998)
Helene Gournier, Harald Stenmark, Vladimir Rybin, Roger Lippé, Marino Zerial
Two distinct effectors of the small GTPase Rab5 cooperate in endocytic membrane fusion.
EMBO J, 17(7) 1930-1940 (1998)
Gaetano Vitale, Vladimir Rybin, Savvas Christoforidis, Per-Ove Thornqvist, Mary McCaffrey, Harald Stenmark, Marino Zerial
Distinct Rab-binding domains mediate the interaction of Rabaptin-5 with GTP-bound Rab4 and Rab5.
EMBO J, 17(7) 1941-1951 (1998)
Paola Zacchi, Harald Stenmark, Robert G. Parton, Donata Orioli, Filip Lim, Angelika Giner, Ira Mellman, Marino Zerial, Carol Murphy
Rab17 regulates membrane trafficking through apical recycling endosomes in polarized epithelial cells.
J Cell Biol, 140(5) 1039-1053 (1998)
Marino Zerial
Membranes and sorting
Curr Opin Cell Biol, 10 475-476 (1998)
Eugene W Myers, Paulo Oliva, Katia S. Guimarães
Reporting Exact and Approximate Regular Expression Matches
In: Proceedings of the 9th Annual Symposium on Combinatorial Pattern Matching (1998) Lecture Notes in Computer Science ; 1448, New York, Springer (1998), 91-103
Gad M Landau, Eugene W Myers, Jeanette P Schmidt
Incremental String Comparison
SIAM J Sci Comput, 27(2) 557-582 (1998)
M F Sagot, E W Myers
Identifying satellites and periodic repetitions in biological sequences.
J Comput Biol, 5(3) 539-553 (1998)
Harald Stenmark, Marino Zerial
Transient Expression Using the T7 RNA Polymerase Recombinant Vaccinia Virus System
In: Cell Biology: A Laboratory Handbook, 2nd Edition, Vol. 4. (Eds.) Julio E. Celis,Amsterdam, Netherlands,Academic Press (1998),201-203 Ch. 14
Harald Stenmark, Marino Zerial
Stock Preparation of Recombinant Vaccinia Virus
In: Cell Biology: A Laboratory Handbook, 2nd Edition, Vol. 1. (Eds.) Julio E. Celis,Amsterdam, Netherlands,Academic Press (1998),540-543
S Levy, L Compagnoni, E W Myers, G D Stormo
Xlandscape: the graphical display of word frequencies in sequences.
Bioinformatics, 14(1) 74-80 (1998)

1997

Harald Stenmark, Marino Zerial
Lipofection
In: Cell Biology: A Laboratory Handbook, 2nd Edition, Vol. 4. (Eds.) Julio E. Celis,Amsterdam, Netherlands,Academic Press (1997),141-144 Ch. 13
J L Weber, E W Myers
Human whole-genome shotgun sequencing.
Genome Res, 7(5) 401-409 (1997)
Eric Anson, E W Myers
ReAligner: a program for refining DNA sequence multi-alignments.
J Comput Biol, 4(3) 369-383 (1997)
Mudita Jain, E W Myers
Algorithms for computing and integrating physical maps using unique probes.
J Comput Biol, 4(4) 449-466 (1997)

1996

E W Myers
Approximate matching of network expressions with spacers.
J Comput Biol, 3(1) 33-51 (1996)
Simpath K Kannan, Eugene W Myers
An Algorithm for Locating Non-overlaping Regions of Maximum Alignment Score
SIAM J Sci Comput, 25(3) 648-662 (1996)
Gene Myers, Mudita Jain
Going Against the Grain
In: Proceedings of the Third South American Workshop on String Processing : Recife, Brazil (1996), Recife, Brazil, South American Workshop on String Processing (1996), 203-213
Eugene W Myers, Sanford Selznick, Zheng Zhang, Webb Miller
Progressive Multiple Alignment with Constraints
J Comput Biol, 3(4) 563-572 (1996)

1995

Sun Wu, Udi Manber, Eugene W Myers
A Sub-Quadratic Algorithm for Approximate Regular Expression Matching
J of Algorithms, 19(3) 346-360 (1995)
James R Knight, Eugene W Myers
Approximate regular expression pattern matching with concave gap penalties
Algorithmica, 14(1) 85-121 (1995)
Gene Myers
Approximately matching context-free languages.
Inf Process Lett, 54(2) 85-92 (1995)
John D. Kececioglu, Eugene W Myers
Combinatorial algorithms for DNA sequence assembly
Algorithmica, 13(1) 7-51 (1995)
James R Knight, Eugene W Myers
Super-Pattern Matching
Algorithmica, 13(1) 211-243 (1995)
E W Myers
Toward simplifying and accurately formulating fragment assembly.
J Comput Biol, 2(2) 275-290 (1995)
Gene Myers, Webb Miller
Chaining multiple-alignment fragments in sub-quadratic time
In: Proceedings of the sixth annual ACM-SIAM symposium on Discrete algorithms (1995), New York, ACM (1995), 38-47
Mudita Jain, E W Myers
A note on scoring clones given a probe ordering.
J Comput Biol, 2(1) 33-37 (1995)

1994

Eugene W Myers
A sublinear algorithm for approximate keyword searching
Algorithmica, 12(4) 345-374 (1994)
Carolyn J Lawrence, S Honda, N W Parrott, T C Flood, L Gu, L Zhang, Mudita Jain, S Larson, E W Myers
The genome reconstruction manager: a software environment for supporting high-throughput DNA sequencing.
Genomics, 23(1) 192-201 (1994)

1993

Gerhard Mehldau, Gene Myers
A system for pattern matching applications on biosequences.
Comput Appl Biosci, 9(3) 299-314 (1993)
Udi Manber, Eugene W Myers
Suffix arrays: A new method for on-line string searches
SIAM J Sci Comput, 22(5) 935-948 (1993)

1992

E W Myers, X Huang
An O (N² log N) restriction map comparison and search algorithm.
Bull Math Biol, 54(4) 599-618 (1992)
Gene Myers
A Four Russians algorithm for regular expression pattern matching
Journal of the ACM (JACM), 39(2) 432-448 (1992)

1990

S F Altschul, W Gish, W Miller, E W Myers, D J Lipman
Basic local alignment search tool.
J Mol Biol, 215(3) 403-410 (1990)
Sun Wu, Udi Manber, Gene Myers, Webb Miller
An O(NP) Sequence Comparison Algorithm
Inf Process Lett, 35(6) 317-323 (1990)

1989

E W Myers, W Miller
Approximate matching of regular expressions.
Bull Math Biol, 51(1) 5-37 (1989)
Eugene W Myers, Webb Miller
Row replacement algorithms for screen editors
ACM Trans Prog Lang and Systems, 11(1) 33-56 (1989)

1988

E W Myers, W Miller
Optimal alignments in linear space.
Comput Appl Biosci, 4(1) 11-17 (1988)
J D Hall, E W Myers
A software tool for finding locally optimal alignments in protein and nucleic acid sequences.
Comput Appl Biosci, 4(1) 35-40 (1988)
Webb Miller, Eugene Myers
A Simple Row-replacement Method
Softw Pract Exp, 18(7) 597-611 (1988)
W Miller, E W Myers
Sequence comparison with concave weighting functions.
Bull Math Biol, 50(2) 97-120 (1988)

1987

Christopher W. Fraser, Eugene W Myers
An Editor for Revision Control
ACM Trans Prog Lang and Systems, 9(2) 277-295 (1987)

1986

Eugene W Myers
An O(ND) Difference Algorithm and Its Variations
Algorithmica, 1(1) 251-266 (1986)
E W Myers, D W Mount
Computer program for the IBM personal computer which searches for approximate matches to short oligonucleotide sequences in long target DNA sequences.
Nucleic Acids Res, 14(1) 501-508 (1986)
Webb Miller, Eugene W Myers
Side-effects in Automatic File Updating
Softw Pract Exp, 16(9) 809-820 (1986)

1985

Webb Miller, Eugene Myers
A File Comparison Program
Softw Pract Exp, 15(11) 1026-1040 (1985)
Eugene Myers
AN O(ElogE+i) EXPECTED TIME ALGORITHM FOR THE PLANAR SEGMENT INTERSECTION PROBLEM
SIAM J Sci Comput, 14(3) 625-637 (1985)

1984

Christopher W. Fraser, Eugene W Myers, Alan L. Wendt
Analyzing and Compressing Assembly Code
In: Proceedings of the SIGPLAN symposium on Compiler construction (1984) ACM SIGPLAN Notices, New York, ACM (1984), 117-121
Eugene W Myers
Efficient applicative data types
In: Proceedings of the 11th ACM SIGACT-SIGPLAN symposium on Principles of programming languages (1984), New York, ACM (1984), 66-75

1983

Eugene W Myers
An applicative random-access stack
Inf Process Lett, 17(5) 241-248 (1983)

1981

Eugene W Myers
A precise inter-procedural data flow algorithm
In: Proceedings of the 8th ACM SIGPLAN-SIGACT symposium on Principles of programming languages (1981), New York, ACM (1981), 219-230
Leon J. Osterweil, Eugene W Myers
BIGMAC II: A FORTRAN language augmentation tool
In: Proceedings of the 5th international conference on Software engineering (1981), Piscataway, N.J., IEEE (1981), 410-421

1978

Harold N Gabow, Eugene W Myers
FINDING ALL SPANNING TREES OF DIRECTED AND UNDIRECTED GRAPHS
SIAM J Sci Comput, 7(3) 280-287 (1978)