L
Lillian D. Riddick
Researcher at National Institutes of Health
Publications - 8
Citations - 6126
Lillian D. Riddick is an academic researcher from National Institutes of Health. The author has contributed to research in topics: RefSeq & Reference genome. The author has an hindex of 7, co-authored 7 publications receiving 4626 citations. Previous affiliations of Lillian D. Riddick include University of California, Santa Cruz.
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Journal ArticleDOI
Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation
Nuala A. O'Leary,Mathew W. Wright,J. Rodney Brister,Stacy Ciufo,Diana Haddad,Richard McVeigh,Bhanu Rajput,Barbara Robbertse,Brian Smith-White,Danso Ako-adjei,Alexander Astashyn,Azat Badretdin,Yiming Bao,Olga Blinkova,Vyacheslav Brover,Vyacheslav Chetvernin,Jinna Choi,Eric Cox,Olga Ermolaeva,Catherine M. Farrell,Tamara Goldfarb,Tripti Gupta,Daniel H. Haft,Eneida L. Hatcher,Wratko Hlavina,Vinita Joardar,Vamsi K. Kodali,Wenjun Li,Donna Maglott,Patrick Masterson,Kelly M. McGarvey,Michael R. Murphy,Kathleen O'Neill,Shashikant Pujar,Sanjida H. Rangwala,Daniel Rausch,Lillian D. Riddick,Conrad L. Schoch,Andrei Shkeda,Susan S. Storz,Hanzhen Sun,Françoise Thibaud-Nissen,Igor Tolstoy,Raymond E. Tully,Anjana R. Vatsan,Craig Wallin,David Webb,Wendy Wu,Melissa J. Landrum,Avi Kimchi,Tatiana Tatusova,Michael DiCuccio,Paul Kitts,Terence Murphy,Kim D. Pruitt +54 more
TL;DR: The approach to utilizing available RNA-Seq and other data types in the authors' manual curation process for vertebrate, plant, and other species is summarized, and a new direction for prokaryotic genomes and protein name management is described.
Journal ArticleDOI
RefSeq: an update on mammalian reference sequences
Kim D. Pruitt,Garth Brown,Susan M. Hiatt,Françoise Thibaud-Nissen,Alexander Astashyn,Olga Ermolaeva,Catherine M. Farrell,Jennifer Hart,Melissa J. Landrum,Kelly M. McGarvey,Michael R. Murphy,Nuala A. O'Leary,Shashikant Pujar,Bhanu Rajput,Sanjida H. Rangwala,Lillian D. Riddick,Andrei Shkeda,Hanzhen Sun,Pamela Tamez,Raymond E. Tully,Craig Wallin,David Webb,Janet Weber,Wendy Wu,Michael DiCuccio,Paul Kitts,Donna Maglott,Terence Murphy,James Ostell +28 more
TL;DR: The National Center for Biotechnology Information (NCBI) Reference Sequence (RefSeq) database is a collection of annotated genomic, transcript and protein sequence records derived from data in public sequence archives and from computation, curation and collaboration.
Journal ArticleDOI
The consensus coding sequence (CCDS) project: Identifying a common protein-coding gene set for the human and mouse genomes
Kim D. Pruitt,Jennifer Harrow,Rachel A. Harte,Craig Wallin,Mark Diekhans,Donna Maglott,Steve Searle,Catherine M. Farrell,Jane E. Loveland,Barbara J. Ruef,Elizabeth M. Hart,Marie-Marthe Suner,Melissa J. Landrum,Bronwen Aken,Sarah Ayling,Robert Baertsch,Julio Fernandez-Banet,Joshua L. Cherry,Val Curwen,Michael DiCuccio,Manolis Kellis,Jennifer M. Lee,Michael F. Lin,Michael Schuster,Andrew Shkeda,Clara Amid,Garth Brown,Oksana Dukhanina,Adam Frankish,Jennifer Hart,Bonnie L. Maidak,Jonathan M. Mudge,Michael R. Murphy,Terence Murphy,Jeena Rajan,Bhanu Rajput,Lillian D. Riddick,Catherine E. Snow,Charles A. Steward,David Webb,Janet Weber,Laurens G. Wilming,Wenyu Wu,Ewan Birney,David Haussler,Tim Hubbard,James Ostell,Richard Durbin,David J. Lipman +48 more
TL;DR: The CCDS database centralizes the function of identifying well-supported, identically-annotated, protein-coding regions and indicates that the entries in the CCDS set are highly likely to represent real proteins, more so than annotations from contributing groups not included in CCDS.
Journal ArticleDOI
Current status and new features of the Consensus Coding Sequence database
Catherine M. Farrell,Nuala A. O'Leary,Rachel A. Harte,Jane E. Loveland,Laurens G. Wilming,Craig Wallin,Mark Diekhans,Daniel Barrell,Stephen M. J. Searle,Bronwen Aken,Susan M. Hiatt,Adam Frankish,Marie-Marthe Suner,Bhanu Rajput,Charles A. Steward,Garth Brown,Ruth Bennett,Michael R. Murphy,Wendy Wu,M. Kay,Jennifer Hart,Jeena Rajan,Janet Weber,Catherine Snow,Lillian D. Riddick,Toby Hunt,David Webb,Mark G. Thomas,Pamela Tamez,Sanjida H. Rangwala,Kelly M. McGarvey,Shashikant Pujar,Andrei Shkeda,Jonathan M. Mudge,José M. González,James G. R. Gilbert,Stephen J. Trevanion,Robert Baertsch,Jennifer Harrow,Tim Hubbard,James Ostell,David Haussler,Kim D. Pruitt +42 more
TL;DR: The current status and recent growth in the CCDS dataset is described, as well as recent changes to the web and FTP sites, which include more explicit reporting about the NCBI and Ensembl annotation releases being compared, new search and display options, the addition of biologically descriptive information and the approach to representing genes for which support evidence is incomplete.
Journal ArticleDOI
The completion of the Mammalian Gene Collection (MGC).
Gary F. Temple,Daniela S. Gerhard,Rebekah S. Rasooly,Elise A. Feingold,Peter J. Good,Cristen Robinson,Allison Mandich,Jeffrey G. Derge,Jeanne Lewis,Debonny Shoaf,Francis S. Collins,Wonhee Jang,Lukas Wagner,Carolyn M. Shenmen,Leonie Misquitta,Carl F. Schaefer,Kenneth H. Buetow,Tom I. Bonner,Linda Yankie,Ming Ward,Lon Phan,Alex Astashyn,Garth Brown,Catherine M. Farrell,Jennifer Hart,Melissa J. Landrum,Bonnie L. Maidak,Michael R. Murphy,Terence Murphy,Bhanu Rajput,Lillian D. Riddick,David Webb,Janet Weber,Wendy Wu,Kim D. Pruitt,Donna Maglott,Adam Siepel,Brona Brejova,Brona Brejova,Mark Diekhans,Rachel A. Harte,Robert Baertsch,Jim Kent,David Haussler,Michael R. Brent,Laura Langton,Charles L.G. Comstock,Michael Stevens,Chaochun Wei,Chaochun Wei,Marijke J. van Baren,Kourosh Salehi-Ashtiani,Ryan R. Murray,Lila Ghamsari,Elizabeth Mello,Chenwei Lin,Chenwei Lin,Christa Pennacchio,Christa Pennacchio,Kirsten Schreiber,Nicole Shapiro,Nicole Shapiro,Amber Marsh,Elizabeth Pardes,Troy Moore,Anita Lebeau,Mike Muratet,Blake A. Simmons,David Kloske,Stephanie Sieja,James R. Hudson,Praveen Sethupathy,Michael J. Brownstein,Narayan K. Bhat,Narayan K. Bhat,Joseph Lazar,Howard J. Jacob,Chris E. Gruber,Mark R. Smith,John Douglas Mcpherson,Angela M. Garcia,Preethi H. Gunaratne,Preethi H. Gunaratne,Jia Qian Wu,Jia Qian Wu,Donna M. Muzny,Richard A. Gibbs,Alice C. Young,Gerard G. Bouffard,Robert W. Blakesley,Jim C. Mullikin,Eric D. Green,Mark Dickson,Alex Rodriguez,Alex Rodriguez,Jane Grimwood,Jeremy Schmutz,Richard M. Myers,Martin Hirst,Thomas Zeng,Kane Tse,Michelle Moksa,Merinda Deng,Kevin Ma,Diana Mah,Johnson Pang,Greg Taylor,Eric Chuah,Athena Deng,Keith Fichter,Anne Go,Stephanie Lee,Jing Wang,Malachi Griffith,Ryan D. Morin,Richard A. Moore,Michael Mayo,Sarah Munro,Susan Wagner,Steven J.M. Jones,Robert A. Holt,Marco A. Marra,Sun Lu,Shuwei Yang,James Hartigan,Marcus Graf,Ralf Wagner,Stanley Letovksy,Jacqueline C. Pulido,Keith Robison,Dominic Esposito,James L. Hartley,Vanessa Wall,Ralph F. Hopkins,Osamu Ohara,Stefan Wiemann +135 more
TL;DR: The Mammalian Gene Collection now contains clones with the entire protein-coding sequence for 92% of human and 89% of mouse genes with curated RefSeq (NM-accession) transcripts, and for 97%.