All papers authored by Alaina Shumate
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2022
Alaina Shumate 
,
Steven Salzberg,
Salzberg Steven,
Salzberg Steven,
Salzberg Steven,
Shumate Alaina,
Shumate Alaina,
Shumate Alaina,
Shumate Alaina
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,
Steven Salzberg,
Salzberg Steven,
Salzberg Steven,
Salzberg Steven,
Shumate Alaina,
Shumate Alaina,
Shumate Alaina,
Shumate Alaina
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Alaina Shumate ,
Steven Salzberg
,
Steven Salzberg
LiftoffTools: a toolkit for comparing gene annotations mapped between genome assemblies
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Alaina Shumate ,
Jinyan Li,
Brandon Wong ,
Geo Pertea ,
Mihaela Pertea
,
Jinyan Li,
Brandon Wong ,
Geo Pertea ,
Mihaela Pertea
Improved transcriptome assembly using a hybrid of long and short reads with StringTie
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Sergey Aganezov ,
Stephanie M. Yan ,
Daniela C. Soto ,
Melanie Kirsche ,
Samantha Zarate ,
Pavel Avdeyev ,
Dylan J. Taylor ,
Kishwar Shafin ,
Alaina Shumate ,
Chunlin Xiao ,
Justin Wagner,
Jennifer McDaniel ,
Nathan D. Olson ,
Michael E. G. Sauria ,
Mitchell R. Vollger
and 18 other authors
,
Stephanie M. Yan ,
Daniela C. Soto ,
Melanie Kirsche ,
Samantha Zarate ,
Pavel Avdeyev ,
Dylan J. Taylor ,
Kishwar Shafin ,
Alaina Shumate ,
Chunlin Xiao ,
Justin Wagner,
Jennifer McDaniel ,
Nathan D. Olson ,
Michael E. G. Sauria ,
Mitchell R. Vollger
and 18 other authors
A complete reference genome improves analysis of human genetic variation
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Ariel Gershman ,
Michael E. G. Sauria ,
Xavi Guitart ,
Mitchell R. Vollger ,
Paul W. Hook ,
Savannah J. Hoyt ,
Miten Jain ,
Alaina Shumate ,
Roham Razaghi ,
Sergey Koren ,
Nicolas Altemose ,
Gina V. Caldas,
Glennis A. Logsdon ,
Arang Rhie ,
Evan E. Eichler
and 5 other authors
,
Michael E. G. Sauria ,
Xavi Guitart ,
Mitchell R. Vollger ,
Paul W. Hook ,
Savannah J. Hoyt ,
Miten Jain ,
Alaina Shumate ,
Roham Razaghi ,
Sergey Koren ,
Nicolas Altemose ,
Gina V. Caldas,
Glennis A. Logsdon ,
Arang Rhie ,
Evan E. Eichler
and 5 other authors
Epigenetic patterns in a complete human genome
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Sergey Nurk ,
Sergey Koren ,
Arang Rhie ,
Mikko Rautiainen ,
Andrey V. Bzikadze ,
Alla Mikheenko,
Mitchell R. Vollger ,
Nicolas Altemose ,
Lev Uralsky ,
Ariel Gershman ,
Sergey Aganezov ,
Savannah J. Hoyt ,
Mark Diekhans ,
Glennis A. Logsdon ,
Michael Alonge
and 85 other authors
,
Sergey Koren ,
Arang Rhie ,
Mikko Rautiainen ,
Andrey V. Bzikadze ,
Alla Mikheenko,
Mitchell R. Vollger ,
Nicolas Altemose ,
Lev Uralsky ,
Ariel Gershman ,
Sergey Aganezov ,
Savannah J. Hoyt ,
Mark Diekhans ,
Glennis A. Logsdon ,
Michael Alonge
and 85 other authors
The complete sequence of a human genome
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2021
Aleksey V. Zimin,
Alaina Shumate ,
Ida Shinder,
Jakob Heinz,
Daniela Puiu,
Mihaela Pertea ,
Steven L. Salzberg ,
J. Novembre
,
Ida Shinder,
Jakob Heinz,
Daniela Puiu,
Mihaela Pertea ,
Steven L. Salzberg ,
J. Novembre
A reference-quality, fully annotated genome from a Puerto Rican individual
Download from academic.oup.com
2020
Michael Alonge ,
Alaina Shumate ,
Daniela Puiu ,
Aleksey V. Zimin ,
Steven L. Salzberg
,
Alaina Shumate ,
Daniela Puiu ,
Aleksey V. Zimin ,
Steven L. Salzberg
Chromosome-Scale Assembly of the Bread Wheat Genome Reveals Thousands of Additional Gene Copies
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