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Michael C. Schatz
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19
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Method
:
Highly accurate assembly polishing with DeepPolisher
Mira Mastoras
,
Mobin Asri
,
Lucas Brambrink
,
Prajna Hebbar
,
Alexey Kolesnikov
,
Daniel E. Cook
,
Maria Nattestad
,
Julian Lucas
,
Taylor S. Won
,
Pi-Chuan Chang
,
Andrew Carroll
,
Benedict Paten
,
Kishwar Shafin
,
and
and the Human Pangenome Reference Consortium
Genome Res.
July 2025
35
:
1595
-
1608
;
Published in Advance
May 19, 2025
,
doi:
10.1101/gr.280149.124
Abstract
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Perspective
:
Unraveling the hidden complexity of cancer through long-read sequencing
Qiuhui Li
,
Ayse G. Keskus
,
Justin Wagner
,
Michal B. Izydorczyk
,
Winston Timp
,
Fritz J. Sedlazeck
,
Alison P. Klein
,
Justin M. Zook
,
Mikhail Kolmogorov
,
and
Michael C. Schatz
Genome Res.
April 2025
35
:
599
-
620
;
Published in Advance
March 20, 2025
,
doi:
10.1101/gr.280041.124
Abstract
Full Text
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Method
:
Integration of transcriptomics and long-read genomics prioritizes structural variants in rare disease
Tanner D. Jensen
,
Bohan Ni
,
Chloe M. Reuter
,
John E. Gorzynski
,
Sarah Fazal
,
Devon Bonner
,
Rachel A. Ungar
,
Pagé C. Goddard
,
Archana Raja
,
Euan A. Ashley
,
Jonathan A. Bernstein
,
Stephan Zuchner
,
Undiagnosed Diseases Network
,
Michael D. Greicius
,
Stephen B. Montgomery
,
Michael C. Schatz
,
Matthew T. Wheeler
,
and
Alexis Battle
Genome Res.
April 2025
35
:
914
-
928
;
Published in Advance
March 20, 2025
,
doi:
10.1101/gr.279323.124
Abstract
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Review
:
k
-mer approaches for biodiversity genomics
Katharine M. Jenike
,
Lucía Campos-Domínguez
,
Marilou Boddé
,
José Cerca
,
Christina N. Hodson
,
Michael C. Schatz
,
and
Kamil S. Jaron
Genome Res.
February 2025
35
:
219
-
230
;
Published in Advance
January 31, 2025
,
doi:
10.1101/gr.279452.124
Abstract
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Resource
:
High-coverage nanopore sequencing of samples from the 1000 Genomes Project to build a comprehensive catalog of human genetic variation
Jonas A. Gustafson
,
Sophia B. Gibson
,
Nikhita Damaraju
,
Miranda P.G. Zalusky
,
Kendra Hoekzema
,
David Twesigomwe
,
Lei Yang
,
Anthony A. Snead
,
Phillip A. Richmond
,
Wouter De Coster
,
Nathan D. Olson
,
Andrea Guarracino
,
Qiuhui Li
,
Angela L. Miller
,
Joy Goffena
,
Zachary B. Anderson
,
Sophie H.R. Storz
,
Sydney A. Ward
,
Maisha Sinha
,
Claudia Gonzaga-Jauregui
,
Wayne E. Clarke
,
Anna O. Basile
,
André Corvelo
,
Catherine Reeves
,
Adrienne Helland
,
Rajeeva Lochan Musunuri
,
Mahler Revsine
,
Karynne E. Patterson
,
Cate R. Paschal
,
Christina Zakarian
,
Sara Goodwin
,
Tanner D. Jensen
,
Esther Robb
,
The 1000 Genomes ONT Sequencing Consortium
,
University of Washington Center for Rare Disease Research (UW-CRDR)
,
Genomics Research to Elucidate the Genetics of Rare Diseases (GREGoR) Consortium
,
William Richard McCombie
,
Fritz J. Sedlazeck
,
Justin M. Zook
,
Stephen B. Montgomery
,
Erik Garrison
,
Mikhail Kolmogorov
,
Michael C. Schatz
,
Richard N. McLaughlin, Jr.
,
Harriet Dashnow
,
Michael C. Zody
,
Matt Loose
,
Miten Jain
,
Evan E. Eichler
,
and
Danny E. Miller
Genome Res.
November 2024
34
:
2061
-
2073
;
Published in Advance
October 2, 2024
,
doi:
10.1101/gr.279273.124
Abstract
Full Text
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Method
:
Gapless assembly of complete human and plant chromosomes using only nanopore sequencing
Sergey Koren
,
Zhigui Bao
,
Andrea Guarracino
,
Shujun Ou
,
Sara Goodwin
,
Katharine M. Jenike
,
Julian Lucas
,
Brandy McNulty
,
Jimin Park
,
Mikko Rautiainen
,
Arang Rhie
,
Dick Roelofs
,
Harrie Schneiders
,
Ilse Vrijenhoek
,
Koen Nijbroek
,
Olle Nordesjo
,
Sergey Nurk
,
Mike Vella
,
Katherine R. Lawrence
,
Doreen Ware
,
Michael C. Schatz
,
Erik Garrison
,
Sanwen Huang
,
William Richard McCombie
,
Karen H. Miga
,
Alexander H.J. Wittenberg
,
and
Adam M. Phillippy
Genome Res.
November 2024
34
:
1919
-
1930
;
Published in Advance
November 6, 2024
,
doi:
10.1101/gr.279334.124
Abstract
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Research
:
Differences in activity and stability drive transposable element variation in tropical and temperate maize
Shujun Ou
,
Armin Scheben
,
Tyler Collins
,
Yinjie Qiu
,
Arun S. Seetharam
,
Claire C. Menard
,
Nancy Manchanda
,
Jonathan I. Gent
,
Michael C. Schatz
,
Sarah N. Anderson
,
Matthew B. Hufford
,
and
Candice N. Hirsch
Genome Res.
August 2024
34
:
1140
-
1153
;
Published in Advance
September 9, 2024
,
doi:
10.1101/gr.278131.123
Abstract
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Resource
:
Interspecies regulatory landscapes and elements revealed by novel joint systematic integration of human and mouse blood cell epigenomes
Guanjue Xiang
,
Xi He
,
Belinda M. Giardine
,
Kathryn J. Isaac
,
Dylan J. Taylor
,
Rajiv C. McCoy
,
Camden Jansen
,
Cheryl A. Keller
,
Alexander Q. Wixom
,
April Cockburn
,
Amber Miller
,
Qian Qi
,
Yanghua He
,
Yichao Li
,
Jens Lichtenberg
,
Elisabeth F. Heuston
,
Stacie M. Anderson
,
Jing Luan
,
Marit W. Vermunt
,
Feng Yue
,
Michael E.G. Sauria
,
Michael C. Schatz
,
James Taylor
,
Berthold Göttgens
,
Jim R. Hughes
,
Douglas R. Higgs
,
Mitchell J. Weiss
,
Yong Cheng
,
Gerd A. Blobel
,
David M. Bodine
,
Yu Zhang
,
Qunhua Li
,
Shaun Mahony
,
and
Ross C. Hardison
Genome Res.
July 2024
34
:
1089
-
1105
;
Published in Advance
July 1, 2024
,
doi:
10.1101/gr.277950.123
Abstract
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Perspective
:
Diversifying the genomic data science research community
The Genomic Data Science Community Network
Genome Res.
July 2022
32
:
1231
-
1241
;
Published in Advance
July 20, 2022
,
doi:
10.1101/gr.276496.121
Abstract
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Research
:
The genomic basis of evolutionary differentiation among honey bees
Bertrand Fouks
,
Philipp Brand
,
Hung N. Nguyen
,
Jacob Herman
,
Francisco Camara
,
Daniel Ence
,
Darren E. Hagen
,
Katharina J. Hoff
,
Stefanie Nachweide
,
Lars Romoth
,
Kimberly K.O. Walden
,
Roderic Guigo
,
Mario Stanke
,
Giuseppe Narzisi
,
Mark Yandell
,
Hugh M. Robertson
,
Nikolaus Koeniger
,
Panuwan Chantawannakul
,
Michael C. Schatz
,
Kim C. Worley
,
Gene E. Robinson
,
Christine G. Elsik
,
and
Olav Rueppell
Genome Res.
July 2021
31
:
1203
-
1215
;
Published in Advance
May 4, 2021
,
doi:
10.1101/gr.272310.120
Abstract
Full Text
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