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Jose M. Gonzalez
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:
Discovery of high-confidence human protein-coding genes and exons by whole-genome PhyloCSF helps elucidate 118 GWAS loci
Jonathan M. Mudge
,
Irwin Jungreis
,
Toby Hunt
,
Jose Manuel Gonzalez
,
James C. Wright
,
Mike Kay
,
Claire Davidson
,
Stephen Fitzgerald
,
Ruth Seal
,
Susan Tweedie
,
Liang He
,
Robert M. Waterhouse
,
Yue Li
,
Elspeth Bruford
,
Jyoti S. Choudhary
,
Adam Frankish
,
and
Manolis Kellis
Genome Res.
December 2019
29
:
2073
-
2087
;
Published in Advance
September 19, 2019
,
doi:
10.1101/gr.246462.118
Abstract
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Method
:
Combining RT-PCR-seq and RNA-seq to catalog all genic elements encoded in the human genome
Cédric Howald
,
Andrea Tanzer
,
Jacqueline Chrast
,
Felix Kokocinski
,
Thomas Derrien
,
Nathalie Walters
,
Jose M. Gonzalez
,
Adam Frankish
,
Bronwen L. Aken
,
Thibaut Hourlier
,
Jan-Hinnerk Vogel
,
Simon White
,
Stephen Searle
,
Jennifer Harrow
,
Tim J. Hubbard
,
Roderic Guigó
,
and
Alexandre Reymond
Genome Res.
September 2012
22
:
1698
-
1710
;
doi:
10.1101/gr.134478.111
Abstract
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Resource
:
GENCODE: The reference human genome annotation for The ENCODE Project
Jennifer Harrow
,
Adam Frankish
,
Jose M. Gonzalez
,
Electra Tapanari
,
Mark Diekhans
,
Felix Kokocinski
,
Bronwen L. Aken
,
Daniel Barrell
,
Amonida Zadissa
,
Stephen Searle
,
If Barnes
,
Alexandra Bignell
,
Veronika Boychenko
,
Toby Hunt
,
Mike Kay
,
Gaurab Mukherjee
,
Jeena Rajan
,
Gloria Despacio-Reyes
,
Gary Saunders
,
Charles Steward
,
Rachel Harte
,
Michael Lin
,
Cédric Howald
,
Andrea Tanzer
,
Thomas Derrien
,
Jacqueline Chrast
,
Nathalie Walters
,
Suganthi Balasubramanian
,
Baikang Pei
,
Michael Tress
,
Jose Manuel Rodriguez
,
Iakes Ezkurdia
,
Jeltje van Baren
,
Michael Brent
,
David Haussler
,
Manolis Kellis
,
Alfonso Valencia
,
Alexandre Reymond
,
Mark Gerstein
,
Roderic Guigó
,
and
Tim J. Hubbard
Genome Res.
September 2012
22
:
1760
-
1774
;
doi:
10.1101/gr.135350.111
Abstract
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:
The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression
Thomas Derrien
,
Rory Johnson
,
Giovanni Bussotti
,
Andrea Tanzer
,
Sarah Djebali
,
Hagen Tilgner
,
Gregory Guernec
,
David Martin
,
Angelika Merkel
,
David G. Knowles
,
Julien Lagarde
,
Lavanya Veeravalli
,
Xiaoan Ruan
,
Yijun Ruan
,
Timo Lassmann
,
Piero Carninci
,
James B. Brown
,
Leonard Lipovich
,
Jose M. Gonzalez
,
Mark Thomas
,
Carrie A. Davis
,
Ramin Shiekhattar
,
Thomas R. Gingeras
,
Tim J. Hubbard
,
Cedric Notredame
,
Jennifer Harrow
,
and
Roderic Guigó
Genome Res.
September 2012
22
:
1775
-
1789
;
doi:
10.1101/gr.132159.111
Abstract
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LETTER
:
Comparative DNA Sequence Analysis of Wheat and Rice Genomes
Mark E. Sorrells
,
Mauricio La Rota
,
Catherine E. Bermudez-Kandianis
,
Robert A. Greene
,
Ramesh Kantety
,
Jesse D. Munkvold
,
Miftahudin
,
Ahmed Mahmoud
,
Xuefeng Ma
,
Perry J. Gustafson
,
Lili L. Qi
,
Benjamin Echalier
,
Bikram S. Gill
,
David E. Matthews
,
Gerard R. Lazo
,
Shiaoman Chao
,
Olin D. Anderson
,
Hugh Edwards
,
Anna M. Linkiewicz
,
Jorge Dubcovsky
,
Eduard D. Akhunov
,
Jan Dvorak
,
Deshui Zhang
,
Henry T. Nguyen
,
Junhua Peng
,
Nora L.V. Lapitan
,
Jose L. Gonzalez-Hernandez
,
James A. Anderson
,
Khwaja Hossain
,
Venu Kalavacharla
,
Shahryar F. Kianian
,
Dong-Woog Choi
,
Timothy J. Close
,
Muharrem Dilbirligi
,
Kulvinder S. Gill
,
Camille Steber
,
Mary K. Walker-Simmons
,
Patrick E. McGuire
,
and
Calvin O. Qualset
Genome Res.
August 2003
13
:
1818
-
1827
;
doi:
10.1101/gr.1113003
Abstract
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ARTICLE
:
The Organization and Rate of Evolution of Wheat Genomes Are Correlated With Recombination Rates Along Chromosome Arms
Eduard D. Akhunov
,
Andrew W. Goodyear
,
Shu Geng
,
Li-Li Qi
,
Benjamin Echalier
,
Bikram S. Gill
,
Miftahudin
,
J. Perry Gustafson
,
Gerard Lazo
,
Shiaoman Chao
,
Olin D. Anderson
,
Anna M. Linkiewicz
,
Jorge Dubcovsky
,
Mauricio La Rota
,
Mark E. Sorrells
,
Deshui Zhang
,
Henry T. Nguyen
,
Venugopal Kalavacharla
,
Khwaja Hossain
,
Shahryar F. Kianian
,
Junhua Peng
,
Nora L.V. Lapitan
,
Jose L. Gonzalez-Hernandez
,
James A. Anderson
,
Dong-Woog Choi
,
Timothy J. Close
,
Muharrem Dilbirligi
,
Kulvinder S. Gill
,
M. Kay Walker-Simmons
,
Camille Steber
,
Patrick E. McGuire
,
Calvin O. Qualset
,
and
Jan Dvorak
Genome Res.
May 1, 2003
13
:
753
-
763
;
Published in Advance
April 14, 2003
,
doi:
10.1101/gr.808603
Abstract
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