Search | Genome Research

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Resource

GenTree, an integrated resource for analyzing the evolution and function of primate-specific coding genes

Yi Shao
Chunyan Chen
Hao Shen
Bin Z. He
Daqi Yu
Shuai Jiang Shilei Zhao Zhiqiang Gao Zhenglin Zhu Xi Chen Yan Fu
... [+6 authors] ...,
Hua Chen
Ge Gao
Manyuan Long
Yong E. Zhang

First Published March 12, 2019

Resource

Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly

Valerie A. Schneider
Tina Graves-Lindsay
Kerstin Howe
Nathan Bouk
Hsiu-Chuan Chen
Paul A. Kitts Terence D. Murphy Kim D. Pruitt Françoise Thibaud-Nissen Derek Albracht Robert S. Fulton Milinn Kremitzki Vincent Magrini Chris Markovic Sean McGrath Karyn Meltz Steinberg Kate Auger William Chow Joanna Collins Glenn Harden Timothy Hubbard Sarah Pelan Jared T. Simpson Glen Threadgold James Torrance Jonathan M. Wood Laura Clarke Sergey Koren Matthew Boitano Paul Peluso Heng Li Chen-Shan Chin Adam M. Phillippy Richard Durbin
... [+29 authors] ...,
Richard K. Wilson
Paul Flicek
Evan E. Eichler
Deanna M. Church

First Published April 10, 2017

Method

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

Resource

Assemblathon 1: A competitive assessment of de novo short read assembly methods

Dent Earl
Keith Bradnam
John St. John
Aaron Darling
Dawei Lin
Joseph Fass Hung On Ken Yu Vince Buffalo Daniel R. Zerbino Mark Diekhans Ngan Nguyen Pramila Nuwantha Ariyaratne Wing-Kin Sung Zemin Ning Matthias Haimel Jared T. Simpson Nuno A. Fonseca İnanç Birol T. Roderick Docking Isaac Y. Ho Daniel S. Rokhsar Rayan Chikhi Dominique Lavenier Guillaume Chapuis Delphine Naquin Nicolas Maillet Michael C. Schatz David R. Kelley Adam M. Phillippy Sergey Koren Shiaw-Pyng Yang Wei Wu Wen-Chi Chou Anuj Srivastava Timothy I. Shaw J. Graham Ruby Peter Skewes-Cox Miguel Betegon Michelle T. Dimon Victor Solovyev Igor Seledtsov Petr Kosarev Denis Vorobyev Ricardo Ramirez-Gonzalez Richard Leggett Dan MacLean Fangfang Xia Ruibang Luo Zhenyu Li Yinlong Xie Binghang Liu Sante Gnerre Iain MacCallum Dariusz Przybylski Filipe J. Ribeiro Shuangye Yin Ted Sharpe Giles Hall Paul J. Kersey Richard Durbin Shaun D. Jackman Jarrod A. Chapman Xiaoqiu Huang Joseph L. DeRisi Mario Caccamo Yingrui Li David B. Jaffe
... [+62 authors] ...,
Richard E. Green
David Haussler
Ian Korf
Benedict Paten

First Published September 16, 2011

Method

Revealing the genetic structure of a trait by sequencing a population under selection

Leopold Parts
Francisco A. Cubillos
Jonas Warringer
Kanika Jain
Francisco Salinas
Suzannah J. Bumpstead Mikael Molin Amin Zia Jared T. Simpson Michael A. Quail
... [+5 authors] ...,
Alan Moses
Edward J. Louis
Richard Durbin
Gianni Liti

First Published March 21, 2011

Resource

ABySS: A parallel assembler for short read sequence data

Jared T. Simpson
Kim Wong
Shaun D. Jackman
Jacqueline E. Schein
Steven J.M. Jones
İnanç Birol

First Published February 27, 2009

Letter

Alternative splicing of anciently exonized 5S rRNA regulates plant transcription factor TFIIIA

Yan Fu
Oliver Bannach
Hao Chen
Jan-Hendrik Teune
Axel Schmitz
Gerhard Steger
Liming Xiong
W. Brad Barbazuk

First Published February 10, 2009

PERSPECTIVE

Genome-wide analyses of alternative splicing in plants: Opportunities and challenges

W. Brad Barbazuk
Yan Fu
Karen M. McGinnis

First Published July 30, 2008