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List of works by Pavel Tomancak

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

scientific article published on 20 February 2016

A role for tuned levels of nucleosome remodeler subunit ACF1 during Drosophila oogenesis

scientific article published on 02 February 2016

A toolkit for high-throughput, cross-species gene engineering in Drosophila

scientific article

Abundant occurrence of basal radial glia in the subventricular zone of embryonic neocortex of a lissencephalic primate, the common marmoset Callithrix jacchus.

scientific article published on 23 November 2011

An adaptive threshold in mammalian neocortical evolution

scientific article

An alignment-free method to identify candidate orthologous enhancers in multiple Drosophila genomes

scientific article

An automated workflow for parallel processing of large multiview SPIM recordings

scientific article published on December 2015

An excess of gene expression divergence on the X chromosome in Drosophila embryos: implications for the faster-X hypothesis

scientific article

An integrated micro- and macroarchitectural analysis of the Drosophila brain by computer-assisted serial section electron microscopy

scientific article

An objective comparison of cell-tracking algorithms.

scientific article published on 30 October 2017

Analysis of Actomyosin Dynamics at Local Cellular and Tissue Scales Using Time-lapse Movies of Cultured Drosophila Egg Chambers

scientific article published on 03 June 2019

Assessing phototoxicity in live fluorescence imaging.

scientific article published in June 2017

Attachment of the blastoderm to the vitelline envelope affects gastrulation of insects.

scientific article published on 27 March 2019

Bead-based mosaicing of single plane illumination microscopy images using geometric local descriptor matching

BigDataViewer: visualization and processing for large image data sets

scientific article

Bioimage Informatics in the context of Drosophila research

scientific article published on 13 April 2014

Biological imaging software tools

scientific article published on 28 June 2012

CATMAID: collaborative annotation toolkit for massive amounts of image data

scientific article

CLIJ: GPU-accelerated image processing for everyone

scientific article published on 01 January 2020

Cell communication in the blink of an eye

scientific article published on 01 July 2019

Comment on "Cortical folding scales universally with surface area and thickness, not number of neurons".

scientific article published on February 2016

Computational identification of Drosophila microRNA genes

scientific article published in 2003

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

scientific article published on 26 November 2018

Control of Hox transcription factor concentration and cell-to-cell variability by an auto-regulatory switch

scientific article published on 25 January 2019

Current challenges in open-source bioimage informatics

scientific article published on 28 June 2012

Drosophila microRNAs exhibit diverse spatial expression patterns during embryonic development

scientific article

Ectopic expression of S28A-mutated Histone H3 modulates longevity, stress resistance and cardiac function in Drosophila.

scientific article published on 13 February 2018

Efficient Bayesian-based multiview deconvolution

scientific article

Elastic volume reconstruction from series of ultra-thin microscopy sections

scientific article published on 10 June 2012

Endogenously tagged rab proteins: a resource to study membrane trafficking in Drosophila

scientific article published on May 2015

Epithelial rotation is preceded by planar symmetry breaking of actomyosin and protects epithelial tissue from cell deformations.

scientific article published on 27 November 2017

Erratum: Visualization of image data from cells to organisms

scholarly article by Thomas Walter et al published June 2010 in Nature Methods

Evolutionary history of tissue bending

scientific article published on 01 October 2019

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

scientific article

Exploring Time-dependent Scientific Data Using Spatially Aware Mobiles and Large Displays

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

scientific article

Gene Regulation: Analog to Digital Conversion of Transcription Factor Gradients

scientific article published on 01 June 2019

Gene expression divergence recapitulates the developmental hourglass model

scientific article

Global analysis of mRNA localization reveals a prominent role in organizing cellular architecture and function.

scientific article published in October 2007

Global analysis of patterns of gene expression during Drosophila embryogenesis

scientific article published on January 2007

Globally optimal stitching of tiled 3D microscopic image acquisitions

scientific article

Going "open" with mesoscopy: a new dimension on multi-view imaging.

scientific article

Guide to light-sheet microscopy for adventurous biologists

scientific article published in January 2015

Imaging Flies by Fluorescence Microscopy: Principles, Technologies, and Applications

article

Imaging plant germline differentiation within Arabidopsis flowers by light sheet microscopy

scientific article published on 11 February 2020

In vivo RNAi rescue in Drosophila melanogaster with genomic transgenes from Drosophila pseudoobscura

scientific article

Introns and gene expression: cellular constraints, transcriptional regulation, and evolutionary consequences

scientific article

Light-sheet microscopy for everyone? Experience of building an OpenSPIM to study flatworm development

scientific article

Mapping the complexity of transcription control in higher eukaryotes

scientific article published on 30 April 2010

Mapping the gene expression universe

scientific article published on 20 September 2008

Meeting report: first light sheet based fluorescence microscopy workshop

scientific article published on 01 August 2010

Mosaicing of single plane illumination microscopy images using groupwise registration and fast content-based image fusion

Motif composition, conservation and condition-specificity of single and alternative transcription start sites in the Drosophila genome

scientific article published on 9 July 2009

Multi-view light-sheet imaging and tracking with the MaMuT software reveals the cell lineage of a direct developing arthropod limb

scientific article published on 29 March 2018

Mutations in DONSON disrupt replication fork stability and cause microcephalic dwarfism

scientific article published on 13 February 2017

Open-source solutions for SPIMage processing

scientific article

OpenSPIM: an open-access light-sheet microscopy platform

scientific article published on 9 June 2013

Ordered patterning of the sensory system is susceptible to stochastic features of gene expression

scientific article published on 26 February 2020

Probing the kinetic landscape of Hox transcription factor-DNA binding in live cells by massively parallel Fluorescence Correlation Spectroscopy.

scientific article published on 28 September 2015

Production of fosmid genomic libraries optimized for liquid culture recombineering and cross-species transgenesis.

scientific article

Publisher Correction: Attachment of the blastoderm to the vitelline envelope affects gastrulation of insects

scientific article published on 01 April 2019

Publisher Correction: Tissue clearing and its applications in neuroscience

scientific article published on 09 March 2020

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

scientific article published on 12 April 2018

Rapid Ovary Mass-Isolation (ROMi) to Obtain Large Quantities of Drosophila Egg Chambers for Fluorescent In Situ Hybridization.

scientific article published in January 2016

Recombination-mediated genetic engineering of large genomic DNA transgenes.

scientific article published in January 2011

Regionalized tissue fluidization is required for epithelial gap closure during insect gastrulation

scientific article published on 05 November 2020

Restoration of Uneven Illumination in Light Sheet Microscopy Images

article published in 2011

Sample Preparation and Mounting of Drosophila Embryos for Multiview Light Sheet Microscopy

scientific article

Selective maintenance of Drosophila tandemly arranged duplicated genes during evolution

scientific article published on 16 December 2008

Small molecule screen in embryonic zebrafish using modular variations to target segmentation.

scientific article published in December 2017

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

scientific article published in June 2010

Surface tension determines tissue shape and growth kinetics

scientific article published on 11 September 2019

Systematic determination of patterns of gene expression during Drosophila embryogenesis

scientific article

Systematic imaging reveals features and changing localization of mRNAs in Drosophila development

scientific article

The ImageJ Ecosystem: open-source software for image visualization, processing, and analysis

scientific article published on 09 November 2020

The apical protein Apnoia interacts with Crumbs to regulate tracheal growth and inflation

scientific article published on 15 January 2019

The earliest transcribed zygotic genes are short, newly evolved, and different across species

scientific article published on 16 January 2014

The evolution of early animal embryos: conservation or divergence?

scientific article (publication date: July 2012)

Tissue clearing and its applications in neuroscience

scientific article published on 01 February 2020

TrakEM2 software for neural circuit reconstruction

scientific article (publication date: 2012)

Transcriptional control in embryonic Drosophila midline guidance assessed through a whole genome approach

scientific article

Using Light Sheet Fluorescence Microscopy to Image Zebrafish Eye Development

scientific article

Visualization of image data from cells to organisms

scientific article

Yorkie controls tube length and apical barrier integrity during airway development

scientific article published on 17 July 2019

linkcomm: an R package for the generation, visualization, and analysis of link communities in networks of arbitrary size and type

scientific article

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