S
Shankar Subramaniam
Researcher at University of California, San Diego
Publications - 317
Citations - 25253
Shankar Subramaniam is an academic researcher from University of California, San Diego. The author has contributed to research in topics: Systems biology & Gene. The author has an hindex of 69, co-authored 293 publications receiving 21740 citations. Previous affiliations of Shankar Subramaniam include San Diego Supercomputer Center & University of Illinois at Urbana–Champaign.
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Journal ArticleDOI
The Gene Ontology Resource: 20 years and still GOing strong
Seth Carbon,Eric Douglass,Nathan Dunn,Benjamin M. Good,Nomi L. Harris,Suzanna E. Lewis,Christopher J. Mungall,S. Basu,Rex L. Chisholm,Robert J. Dodson,E. Hartline,Petra Fey,Paul Thomas,Laurent-Philippe Albou,Dustin Ebert,M. J. Kesling,Huaiyu Mi,Anushya Muruganujan,Xiaosong Huang,S. Poudel,Tremayne Mushayahama,James C. Hu,Sandra A. LaBonte,Deborah A. Siegele,Giulia Antonazzo,Helen Attrill,Nicholas H. Brown,S. Fexova,Phani V. Garapati,T. E.M. Jones,Steven J Marygold,Gillian Millburn,Alix J. Rey,Vítor Trovisco,G. Dos Santos,David B. Emmert,Kathleen Falls,Pinglei Zhou,Joshua L. Goodman,Victor B. Strelets,Jim Thurmond,Mélanie Courtot,D. S. Osumi,Helen Parkinson,Paola Roncaglia,Marcio Luis Acencio,Martin Kuiper,A. Lreid,Colin Logie,Ruth C. Lovering,Rachael P. Huntley,Paul Denny,Nancy H. Campbell,Barbara Kramarz,Vanessa Acquaah,S. H. Ahmad,H. Chen,J. H. Rawson,Marcus C. Chibucos,Michelle G. Giglio,Suvarna Nadendla,Rebecca Tauber,Margaret Duesbury,N. T. Del,Birgit H M Meldal,Livia Perfetto,Pablo Porras,Sandra Orchard,Anjali Shrivastava,Z. Xie,Hsin-Yu Chang,Robert D. Finn,Alex L. Mitchell,Neil D. Rawlings,Lorna Richardson,Amaia Sangrador-Vegas,Judith A. Blake,Karen R. Christie,Mary E. Dolan,H. Drabkin,David P. Hill,Li Ni,D. Sitnikov,Midori A. Harris,Stephen G. Oliver,Kim Rutherford,Valerie Wood,Jacqueline Hayles,Jürg Bähler,Antonia Lock,Elizabeth R Bolton,J L De Pons,Melinda R. Dwinell,G. T. Hayman,Stan Laulederkind,Mary Shimoyama,Marek Tutaj,Shur-Jen Wang,Peter D'Eustachio,Lisa Matthews,James P. Balhoff,Suzi Aleksander,Gail Binkley,B. L. Dunn,J. M. Cherry,Stacia R. Engel,Felix Gondwe,Kalpana Karra,Kevin A. MacPherson,Stuart R. Miyasato,Robert S. Nash,P. C. Ng,Travis K. Sheppard,A. Shrivatsav Vp,Matt Simison,Marek S. Skrzypek,Shuai Weng,Edith D. Wong,Marc Feuermann,Pascale Gaudet,E. Bakker,Tanya Z. Berardini,Leonore Reiser,Shankar Subramaniam,Eva Huala,C. Arighi,A. Auchincloss,K. Axelsen,G. P. Argoud,Alex Bateman,B. Bely,M. C. Blatter,E. Boutet,L. Breuza,A. Bridge,R. Britto,H. Bye-A-Jee,C. Casals-Casas,E. Coudert,A. Estreicher,L. Famiglietti,P. Garmiri,George Georghiou,A. Gos,N. Gruaz-Gumowski,E. Hatton-Ellis,U. Hinz,C. Hulo,A. Ignatchenko,F. Jungo,G. Keller,K. Laiho,P. Lemercier,D. Lieberherr,Y. Lussi,A. Mac-Dougall,M. Magrane,Maria Jesus Martin,P. Masson,D. A. Natale,N. N. Hyka,I. Pedruzzi,K. Pichler,S. Poux,C. Rivoire,M. Rodriguez-Lopez,T. Sawford,Elena Speretta,A. Shypitsyna,A. Stutz,S. Sundaram,M. Tognolli,N. Tyagi,Kate Warner,Rossana Zaru,C. Wu,Juancarlos Chan,J. Cho,Sibyl Gao,Christian A. Grove,M. C. Harrison,Kevin L. Howe,Raymond Lee,Jane E. Mendel,Hans-Michael Müller,Daniela Raciti,K. Van Auken,Matthew Berriman,Lincoln Stein,Paul W. Sternberg,Doug Howe,Sabrina Toro,Monte Westerfield +192 more
TL;DR: GO-CAM, a new framework for representing gene function that is more expressive than standard GO annotations, has been released, and users can now explore the growing repository of these models.
Journal ArticleDOI
A comprehensive classification system for lipids
Eoin Fahy,Shankar Subramaniam,H. Alex Brown,Christopher K. Glass,Alfred H. Merrill,Robert C. Murphy,Christian R. H. Raetz,David W. Russell,Yousuke Seyama,Walter A. Shaw,Takao Shimizu,Friedrich Spener,Gerrit van Meer,Michael S. VanNieuwenhze,Stephen H. White,Joseph L. Witztum,Edward A. Dennis +16 more
TL;DR: A comprehensive classification of lipids with a common platform that is compatible with informatics requirements has been developed to deal with the massive amounts of data that will be generated by the lipid community.
Journal ArticleDOI
Update of the LIPID MAPS comprehensive classification system for lipids
Eoin Fahy,Shankar Subramaniam,Robert C. Murphy,Masahiro Nishijima,Christian R. H. Raetz,Takao Shimizu,Friedrich Spener,Gerrit van Meer,Michael J.O. Wakelam,Edward A. Dennis +9 more
TL;DR: The International Lipid Classification and Nomenclature Committee under the sponsorship of the LIPID MAPS Consortium developed and established a "Comprehensive Classification System for Lipids" based on well defined chemical and biochemical principles and using an ontology that is extensible, flexible, and scalable as mentioned in this paper.
Journal ArticleDOI
Lipidomics reveals a remarkable diversity of lipids in human plasma
Oswald Quehenberger,Aaron M. Armando,Alex Brown,Stephen B. Milne,David S. Myers,Alfred H. Merrill,Sibali Bandyopadhyay,Kristin N. Jones,Samuel Kelly,Rebecca L. Shaner,Cameron Sullards,Elaine Wang,Robert C. Murphy,Robert M. Barkley,Thomas J. Leiker,Christian R. H. Raetz,Ziqiang Guan,Gregory M. Laird,David A. Six,David W. Russell,Jeffrey G. McDonald,Shankar Subramaniam,Eoin Fahy,Edward A. Dennis +23 more
TL;DR: The focus of the present study was to define the human plasma lipidome and to establish novel analytical methodologies to quantify the large spectrum of plasma lipids and to quantitatively assessed the levels of over 500 distinct molecular species distributed among the main lipid categories.
Journal ArticleDOI
LMSD: LIPID MAPS structure database.
Manish Sud,Eoin Fahy,Dawn Cotter,Alex Brown,Edward A. Dennis,Christopher K. Glass,Alfred H. Merrill,Robert C. Murphy,Christian R. H. Raetz,David W. Russell,Shankar Subramaniam +10 more
TL;DR: The LIPID MAPS Structure Database (LMSD) is a relational database encompassing structures and annotations of biologically relevant lipids that provides the capability to perform a substructure search or exact match for the structure drawn by the user.