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Graph-based deep reinforcement learning for haplotype assembly with Ralphi

Enzo Battistella
Anant Maheshwari
Barış Ekim
Bonnie Berger
Victoria Popic

First Published November 14, 2025

Accurate fusion transcript identification from long- and short-read isoform sequencing at bulk or single-cell resolution

Qian Qin
Victoria Popic
Kirsty Wienand
Houlin Yu
Emily White
Akanksha Khorgade Asa Shin Christophe Georgescu Catarina D. Campbell Arthur Dondi
... [+5 authors] ...,
Niko Beerenwinkel
Francisca Vazquez
Aziz M. Al'Khafaji
Brian J. Haas

First Published March 14, 2025

Secure discovery of genetic relatives across large-scale and distributed genomic data sets

Matthew M. Hong
David Froelicher
Ricky Magner
Victoria Popic
Bonnie Berger
Hyunghoon Cho

First Published August 7, 2024

C. Thomas Caskey (1938–2022)

Richard A. Gibbs
Aravinda Chakravarti
Evan E. Eichler
Eric D. Green
Richard M. Myers
Anne C. Ferguson-Smith
Kateryna D. Makova
Hillary E. Sussman

First Published February 17, 2022

Deborah A. Nickerson (1954 –2021)

Aravinda Chakravarti
Evan E. Eichler
Richard A. Gibbs
Eric D. Green
Richard M. Myers
Hillary E. Sussman

First Published January 24, 2022

Bos taurus reveals pervasiveness of X–Y arms races in mammalian lineages" > Sequence analysis in Bos taurus reveals pervasiveness of X–Y arms races in mammalian lineages

Jennifer F. Hughes
Helen Skaletsky
Tatyana Pyntikova
Natalia Koutseva
Terje Raudsepp
Laura G. Brown Daniel W. Bellott Ting-Jan Cho Shannon Dugan-Rocha Ziad Khan Colin Kremitzki Catrina Fronick Tina A. Graves-Lindsay Lucinda Fulton Wesley C. Warren Richard K. Wilson Elaine Owens James E. Womack William J. Murphy Donna M. Muzny
... [+15 authors] ...,
Kim C. Worley
Bhanu P. Chowdhary
Richard A. Gibbs
David C. Page

First Published November 18, 2020

Macaca mulatta) based on whole-genome sequences" > The population genomics of rhesus macaques (Macaca mulatta) based on whole-genome sequences

Cheng Xue
Muthuswamy Raveendran
R. Alan Harris
Gloria L. Fawcett
Xiaoming Liu
Simon White Mahmoud Dahdouli David Rio Deiros Jennifer E. Below William Salerno Laura Cox Guoping Fan Betsy Ferguson Julie Horvath Zach Johnson Sree Kanthaswamy H. Michael Kubisch Dahai Liu Michael Platt David G. Smith Binghua Sun Eric J. Vallender Feng Wang Roger W. Wiseman Rui Chen
... [+20 authors] ...,
Donna M. Muzny
Richard A. Gibbs
Fuli Yu
Jeffrey Rogers

First Published October 17, 2016

Postmortem genetic screening for the identification, verification, and reporting of genetic variants contributing to the sudden death of the young

D. Nicole R. Methner
Steven E. Scherer
Katherine Welch
Magdalena Walkiewicz
Christine M. Eng
John W. Belmont Mark C. Powell Viktoriya Korchina Harsha Vardhan Doddapaneni Donna M. Muzny
... [+5 authors] ...,
Richard A. Gibbs
Dwayne A. Wolf
Luis A. Sanchez
Roger Kahn

First Published July 19, 2016

The ethics of conducting molecular autopsies in cases of sudden death in the young

Amy L. McGuire
Quianta Moore
Mary Majumder
Magdalena Walkiewicz
Christine M. Eng
John W. Belmont Salma Nassef Sandra Darilek Katie Rutherford Stacey Pereira Steven E. Scherer V. Reid Sutton
... [+7 authors] ...,
Dwayne Wolf
Richard A. Gibbs
Roger Kahn
Luis A. Sanchez

First Published July 13, 2016

Exonuclease mutations in DNA polymerase epsilon reveal replication strand specific mutation patterns and human origins of replication

Eve Shinbrot
Erin E. Henninger
Nils Weinhold
Kyle R. Covington
A. Yasemin Göksenin
Nikolaus Schultz Hsu Chao HarshaVardhan Doddapaneni Donna M. Muzny
... [+4 authors] ...,
Richard A. Gibbs
Chris Sander
Zachary F. Pursell
David A. Wheeler

First Published September 16, 2014

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