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Method

Interpretation of allele-specific chromatin accessibility using cell state–aware deep learning

  • Zeynep Kalender Atak
  • Ibrahim Ihsan Taskiran
  • Jonas Demeulemeester
  • Christopher Flerin
  • David Mauduit
  • Liesbeth Minnoye Gert Hulselmans
  • ... [+2 authors] ...,
  • Valerie Christiaens
  • Ghanem-Elias Ghanem
  • Jasper Wouters
  • Stein Aerts
  • First Published April 8, 2021
Method

Cross-species analysis of enhancer logic using deep learning

  • Liesbeth Minnoye
  • Ibrahim Ihsan Taskiran
  • David Mauduit
  • Maurizio Fazio
  • Linde Van Aerschot
  • Gert Hulselmans Valerie Christiaens Samira Makhzami Monika Seltenhammer Panagiotis Karras Aline Primot Edouard Cadieu Ellen van Rooijen Jean-Christophe Marine Giorgia Egidy
  • ... [+10 authors] ...,
  • Ghanem-Elias Ghanem
  • Leonard Zon
  • Jasper Wouters
  • Stein Aerts
  • First Published July 30, 2020
Resource

C. elegans embryonic transcriptome with tissue, time, and alternative splicing resolution" > The C. elegans embryonic transcriptome with tissue, time, and alternative splicing resolution

  • Adam D. Warner
  • Louis Gevirtzman
  • LaDeana W. Hillier
  • Brent Ewing
  • Robert H. Waterston
  • First Published May 23, 2019
Resource

C. elegans" > The time-resolved transcriptome of C. elegans

  • Max E. Boeck
  • Chau Huynh
  • Lou Gevirtzman
  • Owen A. Thompson
  • Guilin Wang
  • Dionna M. Kasper
  • Valerie Reinke
  • LaDeana W. Hillier
  • Robert H. Waterston
  • First Published August 16, 2016
Research

Multiplex enhancer-reporter assays uncover unsophisticated TP53 enhancer logic

  • Annelien Verfaillie
  • Dmitry Svetlichnyy
  • Hana Imrichova
  • Kristofer Davie
  • Mark Fiers
  • Zeynep Kalender Atak
  • Gert Hulselmans
  • Valerie Christiaens
  • Stein Aerts
  • First Published May 18, 2016
Resource

Chlorocebus aethiops sabaeus)" > The genome of the vervet (Chlorocebus aethiops sabaeus)

  • Wesley C. Warren
  • Anna J. Jasinska
  • Raquel García-Pérez
  • Hannes Svardal
  • Chad Tomlinson
  • Mariano Rocchi Nicoletta Archidiacono Oronzo Capozzi Patrick Minx Michael J. Montague Kim Kyung LaDeana W. Hillier Milinn Kremitzki Tina Graves Colby Chiang Jennifer Hughes Nam Tran Yu Huang Vasily Ramensky Oi-wa Choi Yoon J. Jung Christopher A. Schmitt Nikoleta Juretic Jessica Wasserscheid Trudy R. Turner Roger W. Wiseman Jennifer J. Tuscher Julie A. Karl Jörn E. Schmitz Roland Zahn David H. O'Connor Eugene Redmond Alex Nisbett Béatrice Jacquelin Michaela C. Müller-Trutwin Jason M. Brenchley Michel Dione Martin Antonio Gary P. Schroth Jay R. Kaplan Matthew J. Jorgensen Gregg W.C. Thomas Matthew W. Hahn Brian J. Raney Bronwen Aken Rishi Nag Juergen Schmitz Gennady Churakov Angela Noll Roscoe Stanyon David Webb Francoise Thibaud-Nissen Magnus Nordborg Tomas Marques-Bonet
  • ... [+49 authors] ...,
  • Ken Dewar
  • George M. Weinstock
  • Richard K. Wilson
  • Nelson B. Freimer
  • First Published September 16, 2015
Research

Evolution and diversity of copy number variation in the great ape lineage

  • Peter H. Sudmant
  • John Huddleston
  • Claudia R. Catacchio
  • Maika Malig
  • LaDeana W. Hillier
  • Carl Baker Kiana Mohajeri Ivanela Kondova Ronald E. Bontrop Stephan Persengiev Francesca Antonacci
  • ... [+6 authors] ...,
  • Mario Ventura
  • Javier Prado-Martinez
  • Tomas Marques-Bonet
  • Evan E. Eichler
  • First Published July 3, 2013
Resource

Caenorhabditis elegans" > The million mutation project: A new approach to genetics in Caenorhabditis elegans

  • Owen Thompson
  • Mark Edgley
  • Pnina Strasbourger
  • Stephane Flibotte
  • Brent Ewing
  • Ryan Adair Vinci Au Iasha Chaudhry Lisa Fernando Harald Hutter Armelle Kieffer Joanne Lau Norris Lee Angela Miller Greta Raymant Bin Shen Jay Shendure Jon Taylor
  • ... [+13 authors] ...,
  • Emily H. Turner
  • LaDeana W. Hillier
  • Donald G. Moerman
  • Robert H. Waterston
  • First Published June 25, 2013
Resource

C. elegans reveals promoter and enhancer architectures" > The landscape of RNA polymerase II transcription initiation in C. elegans reveals promoter and enhancer architectures

  • Ron A.-J. Chen
  • Thomas A. Down
  • Przemyslaw Stempor
  • Q. Brent Chen
  • Thea A. Egelhofer
  • LaDeana W. Hillier
  • Tess E. Jeffers
  • Julie Ahringer
  • First Published April 2, 2013
Research

Comparative motif discovery combined with comparative transcriptomics yields accurate targetome and enhancer predictions

  • Marina Naval-Sánchez
  • Delphine Potier
  • Lotte Haagen
  • Máximo Sánchez
  • Sebastian Munck
  • Bram Van de Sande
  • Fernando Casares
  • Valerie Christiaens
  • Stein Aerts
  • First Published October 15, 2012
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