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Research

Epigenetic characterization of pseudogenes across human tissues

  • Yunzhe Jiang
  • Beatrice Borsari
  • Mark Gerstein
  • First Published April 15, 2026
Resource

A map of enhancer regions in primary human neural progenitor cells using capture STARR-seq

  • Sophia C. Gaynor-Gillett
  • Lijun Cheng
  • Manman Shi
  • Jason Liu
  • Gaoyuan Wang
  • Megan Spector Qiuyu Guo Le Qi Mary Flaherty Martha Wall Ahyeon Hwang Mengting Gu Zhanlin Chen Yuhang Chen Jennifer R. Moran Jing Zhang
  • ... [+11 authors] ...,
  • Donghoon Lee
  • Mark Gerstein
  • Daniel Geschwind
  • Kevin P. White
  • First Published July 11, 2025
Resource

Drosophila and C. elegans transcription factors reveal tissue-specific regulatory relationships" > Binding profiles for 961 Drosophila and C. elegans transcription factors reveal tissue-specific regulatory relationships

  • Michelle Kudron
  • Louis Gevirtzman
  • Alec Victorsen
  • Bridget C. Lear
  • Jiahao Gao
  • Jinrui Xu Swapna Samanta Emily Frink Adri Tran-Pearson Chau Huynh Dionne Vafeados Ann Hammonds William Fisher Martha Wall Greg Wesseling Vanessa Hernandez Zhichun Lin Mary Kasparian Kevin White Ravi Allada Mark Gerstein
  • ... [+16 authors] ...,
  • LaDeana Hillier
  • Susan E. Celniker
  • Valerie Reinke
  • Robert H. Waterston
  • First Published October 22, 2024
Resource

The Planemo toolkit for developing, deploying, and executing scientific data analyses in Galaxy and beyond

  • Simon Bray
  • John Chilton
  • Matthias Bernt
  • Nicola Soranzo
  • Marius van den Beek
  • Bérénice Batut Helena Rasche
  • ... [+2 authors] ...,
  • Martin Čech
  • Peter J.A. Cock
  • Björn Grüning
  • Anton Nekrutenko
  • First Published February 24, 2023
Method

Deep sequencing of short capped RNAs reveals novel families of noncoding RNAs

  • Michiel de Hoon
  • Alessandro Bonetti
  • Charles Plessy
  • Yoshinari Ando
  • Chung-Chau Hon
  • Yuri Ishizu Masayoshi Itoh Sachi Kato Dongyan Lin Sho Maekawa Mitsuyoshi Murata Hiromi Nishiyori Jay W. Shin Jens Stolte Ana Maria Suzuki Michihira Tagami Hazuki Takahashi Supat Thongjuea
  • ... [+13 authors] ...,
  • Alistair R.R. Forrest
  • Yoshihide Hayashizaki
  • Juha Kere
  • Piero Carninci
  • First Published August 12, 2022
Research

Drosophila intestinal stem cells" > Evolution and genomic signatures of spontaneous somatic mutation in Drosophila intestinal stem cells

  • Nick Riddiford
  • Katarzyna Siudeja
  • Marius van den Beek
  • Benjamin Boumard
  • Allison J. Bardin
  • First Published June 24, 2021
Research

Comparative transcriptomics of primary cells in vertebrates

  • Tanvir Alam
  • Saumya Agrawal
  • Jessica Severin
  • Robert S. Young
  • Robin Andersson
  • Erik Arner Akira Hasegawa Marina Lizio Jordan A. Ramilowski Imad Abugessaisa Yuri Ishizu Shohei Noma Hiroshi Tarui Martin S. Taylor Timo Lassmann Masayoshi Itoh Takeya Kasukawa Hideya Kawaji Luigi Marchionni Guojun Sheng Alistair R.R. Forrest
  • ... [+16 authors] ...,
  • Levon M. Khachigian
  • Yoshihide Hayashizaki
  • Piero Carninci
  • Michiel J.L. de Hoon
  • First Published July 27, 2020
Research

Mus caroli and Mus pahari genomes" > Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes

  • David Thybert
  • Maša Roller
  • Fábio C.P. Navarro
  • Ian Fiddes
  • Ian Streeter
  • Christine Feig David Martin-Galvez Mikhail Kolmogorov Václav Janoušek Wasiu Akanni Bronwen Aken Sarah Aldridge Varshith Chakrapani William Chow Laura Clarke Carla Cummins Anthony Doran Matthew Dunn Leo Goodstadt Kerstin Howe Matthew Howell Ambre-Aurore Josselin Robert C. Karn Christina M. Laukaitis Lilue Jingtao Fergal Martin Matthieu Muffato Stefanie Nachtweide Michael A. Quail Cristina Sisu Mario Stanke Klara Stefflova Cock Van Oosterhout Frederic Veyrunes Ben Ward Fengtang Yang Golbahar Yazdanifar Amonida Zadissa David J. Adams Alvis Brazma Mark Gerstein Benedict Paten
  • ... [+37 authors] ...,
  • Son Pham
  • Thomas M. Keane
  • Duncan T. Odom
  • Paul Flicek
  • First Published March 21, 2018
Research

One thousand somatic SNVs per skin fibroblast cell set baseline of mosaic mutational load with patterns that suggest proliferative origin

  • Alexej Abyzov
  • Livia Tomasini
  • Bo Zhou
  • Nikolaos Vasmatzis
  • Gianfilippo Coppola
  • Mariangela Amenduni Reenal Pattni Michael Wilson
  • ... [+3 authors] ...,
  • Mark Gerstein
  • Sherman Weissman
  • Alexander E. Urban
  • Flora M. Vaccarino
  • First Published February 24, 2017
Research

The frequent evolutionary birth and death of functional promoters in mouse and human

  • Robert S. Young
  • Yoshihide Hayashizaki
  • Robin Andersson
  • Albin Sandelin
  • Hideya Kawaji
  • Masayoshi Itoh Timo Lassmann
  • ... [+2 authors] ...,
  • Piero Carninci
  • Wendy A. Bickmore
  • Alistair R. Forrest
  • Martin S. Taylor
  • First Published July 30, 2015
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