Pavel Tomančák

Research interests

Publications

• LABKIT: Labeling and Segmentation Toolkit for Big Image Data

  Frontiers in Computer Science · 2022 · 10.3389/fcomp.2022.777728

• Tissue clearing and its applications in neuroscience

  Nature reviews. Neuroscience · 2020 · 10.1038/s41583-019-0250-1

• The ImageJ ecosystem: Open‐source software for image visualization, processing, and analysis

  Protein Science · 2020 · 10.1002/pro.3993

• Content-aware image restoration: pushing the limits of fluorescence microscopy

  Nature Methods · 2018 · https://doi.org/10.1038/s41592-018-0216-7

• RNA buffers the phase separation behavior of prion-like RNA binding proteins

  Science · 2018 · https://doi.org/10.1126/science.aar7366

• An objective comparison of cell-tracking algorithms

  Nature Methods · 2017 · https://doi.org/10.1038/nmeth.4473

• Assessing phototoxicity in live fluorescence imaging

  Nature Methods · 2017 · 10.1038/nmeth.4344

• A genome-wide resource for the analysis of protein localisation in Drosophila

  eLife · 2016 · 10.7554/elife.12068

• BigDataViewer: visualization and processing for large image data sets

  Nature Methods · 2015 · 10.1038/nmeth.3392

• Efficient Bayesian-based multiview deconvolution

  Nature Methods · 2014 · 10.1038/nmeth.2929

• OpenSPIM: an open-access light-sheet microscopy platform

  Nature Methods · 2013 · https://doi.org/10.1038/nmeth.2507

• Fiji: an open-source platform for biological-image analysis

  Nature Methods · 2012 · https://doi.org/10.1038/nmeth.2019

• TrakEM2 Software for Neural Circuit Reconstruction

  PLoS ONE · 2012 · https://doi.org/10.1371/journal.pone.0038011

• Biological imaging software tools

  Nature Methods · 2012 · 10.1038/nmeth.2084

• Elastic volume reconstruction from series of ultra-thin microscopy sections

  Nature Methods · 2012 · 10.1038/nmeth.2072

• An Integrated Micro- and Macroarchitectural Analysis of the Drosophila Brain by Computer-Assisted Serial Section Electron Microscopy

  PLoS Biology · 2010 · 10.1371/journal.pbio.1000502

• Gene expression divergence recapitulates the developmental hourglass model

  Nature · 2010 · 10.1038/nature09634

• Software for bead-based registration of selective plane illumination microscopy data

  Nature Methods · 2010 · https://doi.org/10.1038/nmeth0610-418

• CATMAID: collaborative annotation toolkit for massive amounts of image data

  Bioinformatics · 2009 · 10.1093/bioinformatics/btp266

• Globally optimal stitching of tiled 3D microscopic image acquisitions

  Bioinformatics · 2009 · https://doi.org/10.1093/bioinformatics/btp184

• Global analysis of patterns of gene expression during Drosophilaembryogenesis

  Genome biology · 2007 · 10.1186/gb-2007-8-7-r145

• Global Analysis of mRNA Localization Reveals a Prominent Role in Organizing Cellular Architecture and Function

  Cell · 2007 · 10.1016/j.cell.2007.08.003

• Computational identification of DrosophilamicroRNA genes

  Genome biology · 2003 · 10.1186/gb-2003-4-7-r42

• Systematic determination of patterns of gene expression during Drosophila embryogenesis

  Genome biology · 2002 · 10.1186/gb-2002-3-12-research0088

• Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome

  Proceedings of the National Academy of Sciences · 2002 · 10.1073/pnas.231608898

Current projects

No projects listed.