P
Pooja E. Umale
Researcher at National Center for Genome Resources
Publications - 8
Citations - 1821
Pooja E. Umale is an academic researcher from National Center for Genome Resources. The author has contributed to research in topics: Comparative genomics & Genomics. The author has an hindex of 6, co-authored 8 publications receiving 1350 citations.
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Journal ArticleDOI
The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): Illuminating the Functional Diversity of Eukaryotic Life in the Oceans through Transcriptome Sequencing
Patrick J. Keeling,Patrick J. Keeling,Fabien Burki,Heather M. Wilcox,Bassem Allam,Eric E. Allen,Linda A. Amaral-Zettler,Linda A. Amaral-Zettler,E. Virginia Armbrust,John M. Archibald,John M. Archibald,Arvind K. Bharti,Callum J. Bell,Bank Beszteri,Kay D. Bidle,Connor Cameron,Lisa Campbell,David A. Caron,Rose Ann Cattolico,Jackie L. Collier,Kathryn J. Coyne,Simon K. Davy,Phillipe Deschamps,Sonya T. Dyhrman,Bente Edvardsen,Ruth D. Gates,Christopher J. Gobler,Spencer J. Greenwood,Stephanie Guida,Jennifer L. Jacobi,Kjetill S. Jakobsen,Erick R. James,Bethany D. Jenkins,Uwe John,Matthew D. Johnson,Andrew R. Juhl,Anja Kamp,Anja Kamp,Laura A. Katz,Ronald P. Kiene,Alexander Kudryavtsev,Alexander Kudryavtsev,Brian S. Leander,Senjie Lin,Connie Lovejoy,Denis H. Lynn,Denis H. Lynn,Adrian Marchetti,George B. McManus,Aurora M. Nedelcu,Susanne Menden-Deuer,Cristina Miceli,Thomas Mock,Marina Montresor,Mary Ann Moran,Shauna A. Murray,Govind Nadathur,Satoshi Nagai,Peter B. Ngam,Brian Palenik,Jan Pawlowski,Giulio Petroni,Gwenael Piganeau,Matthew C. Posewitz,Karin Rengefors,Giovanna Romano,Mary E. Rumpho,Tatiana A. Rynearson,Kelly B. Schilling,Declan C. Schroeder,Alastair G. B. Simpson,Alastair G. B. Simpson,Claudio H. Slamovits,Claudio H. Slamovits,David Roy Smith,G. Jason Smith,Sarah R. Smith,Heidi M. Sosik,Peter Stief,Edward C. Theriot,Scott N. Twary,Pooja E. Umale,Daniel Vaulot,Boris Wawrik,Glen L. Wheeler,William H. Wilson,Yan Xu,Adriana Zingone,Alexandra Z. Worden,Alexandra Z. Worden +89 more
TL;DR: In this paper, the authors describe a resource of 700 transcriptomes from marine microbial eukaryotes to help understand their role in the world's oceans and their biology, evolution, and ecology.
Journal ArticleDOI
The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut.
David J. Bertioli,David J. Bertioli,Steven B. Cannon,Lutz Froenicke,Guodong Huang,Andrew Farmer,Ethalinda K. S. Cannon,Xin Liu,Dongying Gao,Josh Clevenger,Sudhansu Dash,Longhui Ren,Márcio C. Moretzsohn,Kenta Shirasawa,Wei Huang,Bruna Vidigal,Bruna Vidigal,Brian Abernathy,Ye Chu,Chad E. Niederhuth,Pooja E. Umale,Ana Claudia Guerra Araujo,Alexander Kozik,Kyung Do Kim,Mark D. Burow,Mark D. Burow,Rajeev K. Varshney,Xingjun Wang,Xinyou Zhang,Noelle A. Barkley,Noelle A. Barkley,Patricia M. Guimarães,Sachiko Isobe,Baozhu Guo,Boshou Liao,H. Thomas Stalker,Robert J. Schmitz,Brian E. Scheffler,Soraya C. M. Leal-Bertioli,Soraya C. M. Leal-Bertioli,Xu Xun,Scott A. Jackson,Richard W Michelmore,Peggy Ozias-Akins +43 more
TL;DR: The genome sequences of its diploid ancestors are reported to show that these genomes are similar to cultivated peanut's A and B subgenomes and used to identify candidate disease resistance genes, to guide tetraploid transcript assemblies and to detect genetic exchange between cultivated peanuts' subgenome.
Journal ArticleDOI
Legume information system (LegumeInfo.org): a key component of a set of federated data resources for the legume family
Sudhansu Dash,Jacqueline D. Campbell,Ethalinda K. S. Cannon,Alan Cleary,Alan Cleary,Wei Huang,Scott R. Kalberer,Vijay Karingula,Alex G. Rice,Jugpreet Singh,Pooja E. Umale,Nathan T. Weeks,Andrew Wilkey,Andrew Farmer,Steven B. Cannon +14 more
TL;DR: Legume Information System (LIS), at http://legumeinfo.org, is a genomic data portal (GDP) for the legume family that provides access to genetic and genomic information for major crop and model legumes.
The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP)
Patrick J. Keeling,Fabien Burki,Heather M. Wilcox,Bassem Allam,Eric E. Allen,Linda A. Amaral-Zettler,E. V. Armbrust,John M. Archibald,Arvind K. Bharti,Callum J. Bell,Bank Beszteri,Kay D. Bidle,Connor Cameron,Lisa Campbell,David A. Caron,Rose Ann Cattolico,Jackie L. Collier,Kathryn J. Coyne,Simon K. Davy,P Deschamps,Sonya T. Dyhrman,Bente Edvardsen,Ruth D. Gates,Christopher J. Gobler,Spencer J. Greenwood,Stephanie Guida,Jennifer L. Jacobi,Kjetill S. Jakobsen,Erick R. James,Bethany D. Jenkins,Uwe John,Matthew D. Johnson,Andrew R. Juhl,Anja Kamp,Laura A. Katz,Ronald P. Kiene,Alexander Kudryavtsev,Brian S. Leander,Senjie Lin,Connie Lovejoy,Denis H. Lynn,Adrian Marchetti,George B. McManus,Aurora M. Nedelcu,Susanne Menden-Deuer,Cristina Miceli,Thomas Mock,Marina Montresor,Mary Ann Moran,Shauna A. Murray,G Nadathur,Satoshi Nagai,Peter B. Ngam,Brian Palenik,Jan Pawlowski,Giulio Petroni,Gwenael Piganeau,Matthew C. Posewitz,Karin Rengefors,Giovanna Romano,Mary E. Rumpho,Tatiana A. Rynearson,K. B. Schilling,Declan C. Schroeder,Alastair G. B. Simpson,Claudio H. Slamovits,David Roy Smith,G. J. Smith,Sarah R. Smith,Heidi M. Sosik,Peter Stief,Edward C. Theriot,Scott N. Twary,Pooja E. Umale,Daniel Vaulot,Boris Wawrik,Glen L. Wheeler,William H. Wilson,Y Xu,Adriana Zingone,Alexandra Z. Worden +80 more
TL;DR: This Community Page describes a resource of 700 transcriptomes from marine microbial eukaryotes to help understand their role in the world's oceans.
Journal ArticleDOI
Unique Molecular Identifiers reveal a novel sequencing artefact with implications for RNA-Seq based gene expression analysis
Johnny Sena,Giulia Galotto,Nico P. Devitt,Melanie C. Connick,Jennifer L. Jacobi,Pooja E. Umale,Luis Vidali,Callum J. Bell +7 more
TL;DR: It is shown that the common assumption that sequence reads having different mapping coordinates are derived from different starting molecules does not hold, and is likely to result in over-estimation of certain transcript abundances, depending on the counting method employed.