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Epigenetic characterization of pseudogenes across human tissues

Yunzhe Jiang
Beatrice Borsari
Mark Gerstein

First Published April 15, 2026

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

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

Detection of simple and complex de novo mutations with multiple reference sequences

Kiran V. Garimella
Zamin Iqbal
Michael A. Krause
Susana Campino
Mihir Kekre
Eleanor Drury
... [+1 authors] ...,
Dominic Kwiatkowski
Juliana M. Sá
Thomas E. Wellems
Gil McVean

First Published August 19, 2020

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

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

Using reference-free compressed data structures to analyze sequencing reads from thousands of human genomes

Dirk D. Dolle
Zhicheng Liu
Matthew Cotten
Jared T. Simpson
Zamin Iqbal
Richard Durbin
Shane A. McCarthy
Thomas M. Keane

First Published December 16, 2016

A reference data set of 5.4 million phased human variants validated by genetic inheritance from sequencing a three-generation 17-member pedigree

Michael A. Eberle
Epameinondas Fritzilas
Peter Krusche
Morten Källberg
Benjamin L. Moore
Mitchell A. Bekritsky Zamin Iqbal Han-Yu Chuang Sean J. Humphray Aaron L. Halpern
... [+5 authors] ...,
Semyon Kruglyak
Elliott H. Margulies
Gil McVean
David R. Bentley

First Published November 30, 2016

Plasmodium falciparum" > Indels, structural variation, and recombination drive genomic diversity in Plasmodium falciparum

Alistair Miles
Zamin Iqbal
Paul Vauterin
Richard Pearson
Susana Campino
Michel Theron Kelda Gould Daniel Mead Eleanor Drury John O'Brien Valentin Ruano Rubio Bronwyn MacInnis Jonathan Mwangi Upeka Samarakoon Lisa Ranford-Cartwright Michael Ferdig Karen Hayton Xin-zhuan Su
... [+13 authors] ...,
Thomas Wellems
Julian Rayner
Gil McVean
Dominic Kwiatkowski

First Published August 16, 2016

Analysis of variable retroduplications in human populations suggests coupling of retrotransposition to cell division

Alexej Abyzov
Rebecca Iskow
Omer Gokcumen
David W. Radke
Suganthi Balasubramanian
Baikang Pei
Lukas Habegger
Charles Lee
Mark Gerstein

First Published September 11, 2013

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