Literature DB >> 12519942

NCBI Reference Sequence project: update and current status.

Kim D Pruitt1, Tatiana Tatusova, Donna R Maglott.   

Abstract

The goal of the NCBI Reference Sequence (RefSeq) project is to provide the single best non-redundant and comprehensive collection of naturally occurring biological molecules, representing the central dogma. Nucleotide and protein sequences are explicitly linked on a residue-by-residue basis in this collection. Ideally all molecule types will be available for each well-studied organism, but the initial database collection pragmatically includes only those molecules and organisms that are most readily identified. Thus different amounts of information are available for different organisms at any given time. Furthermore, for some organisms additional intermediate records are provided when the genome sequence is not yet finished. The collection is supplied by NCBI through three distinct pipelines in addition to collaborations with community groups. The collection is curated on an ongoing basis. Additional information about the NCBI RefSeq project is available at http://www.ncbi.nih.gov/RefSeq/.

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Year:  2003        PMID: 12519942      PMCID: PMC165558          DOI: 10.1093/nar/gkg111

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  8 in total

1.  Complete genomes in WWW Entrez: data representation and analysis.

Authors:  T A Tatusova; I Karsch-Mizrachi; J A Ostell
Journal:  Bioinformatics       Date:  1999 Jul-Aug       Impact factor: 6.937

2.  Introducing RefSeq and LocusLink: curated human genome resources at the NCBI.

Authors:  K D Pruitt; K S Katz; H Sicotte; D R Maglott
Journal:  Trends Genet       Date:  2000-01       Impact factor: 11.639

3.  The Mouse Genome Database (MGD): expanding genetic and genomic resources for the laboratory mouse. The Mouse Genome Database Group.

Authors:  J A Blake; J T Eppig; J E Richardson; M T Davisson
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

4.  Rat Genome Database (RGD): mapping disease onto the genome.

Authors:  Simon Twigger; Jian Lu; Mary Shimoyama; Dan Chen; Dean Pasko; Hanping Long; Jessica Ginster; Chin-Fu Chen; Rajni Nigam; Anne Kwitek; Janan Eppig; Lois Maltais; Donna Maglott; Greg Schuler; Howard Jacob; Peter J Tonellato
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

5.  The FlyBase database of the Drosophila Genome Projects and community literature.

Authors: 
Journal:  Nucleic Acids Res       Date:  1999-01-01       Impact factor: 16.971

Review 6.  Zebrafish informatics and the ZFIN database.

Authors:  M Westerfield; E Doerry; A E Kirkpatrick; S A Douglas
Journal:  Methods Cell Biol       Date:  1999       Impact factor: 1.441

7.  Guidelines for human gene nomenclature (1997). HUGO Nomenclature Committee.

Authors:  J A White; P J McAlpine; S Antonarakis; H Cann; J T Eppig; K Frazer; J Frezal; D Lancet; J Nahmias; P Pearson; J Peters; A Scott; H Scott; N Spurr; C Talbot; S Povey
Journal:  Genomics       Date:  1997-10-15       Impact factor: 5.736

8.  Online Mendelian Inheritance in Man (OMIM).

Authors:  A Hamosh; A F Scott; J Amberger; D Valle; V A McKusick
Journal:  Hum Mutat       Date:  2000       Impact factor: 4.878

  8 in total
  70 in total

1.  Genome-scale functional profiling of the mammalian AP-1 signaling pathway.

Authors:  Sumit K Chanda; Suhaila White; Anthony P Orth; Richard Reisdorph; Loren Miraglia; Russell S Thomas; Paul DeJesus; Daniel E Mason; Qihong Huang; Raquel Vega; De-Hua Yu; Christian G Nelson; Brendan M Smith; Robert Terry; Alicia S Linford; Yang Yu; Gung-wei Chirn; Chuanzheng Song; Mark A Labow; Dalia Cohen; Frederick J King; Eric C Peters; Peter G Schultz; Peter K Vogt; John B Hogenesch; Jeremy S Caldwell
Journal:  Proc Natl Acad Sci U S A       Date:  2003-09-26       Impact factor: 11.205

2.  Gene indexing: characterization and analysis of NLM's GeneRIFs.

Authors:  Joyce A Mitchell; Alan R Aronson; James G Mork; Lillian C Folk; Susanne M Humphrey; Janice M Ward
Journal:  AMIA Annu Symp Proc       Date:  2003

3.  Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes.

Authors:  W James Kent; Robert Baertsch; Angie Hinrichs; Webb Miller; David Haussler
Journal:  Proc Natl Acad Sci U S A       Date:  2003-09-19       Impact factor: 11.205

4.  A combined computational-experimental approach predicts human microRNA targets.

Authors:  Marianthi Kiriakidou; Peter T Nelson; Andrei Kouranov; Petko Fitziev; Costas Bouyioukos; Zissimos Mourelatos; Artemis Hatzigeorgiou
Journal:  Genes Dev       Date:  2004-05-06       Impact factor: 11.361

5.  ASmodeler: gene modeling of alternative splicing from genomic alignment of mRNA, EST and protein sequences.

Authors:  Namshin Kim; Seokmin Shin; Sanghyuk Lee
Journal:  Nucleic Acids Res       Date:  2004-07-01       Impact factor: 16.971

6.  Resting CD4+ T cells from human immunodeficiency virus type 1 (HIV-1)-infected individuals carry integrated HIV-1 genomes within actively transcribed host genes.

Authors:  Yefei Han; Kara Lassen; Daphne Monie; Ahmad R Sedaghat; Shino Shimoji; Xiao Liu; Theodore C Pierson; Joseph B Margolick; Robert F Siliciano; Janet D Siliciano
Journal:  J Virol       Date:  2004-06       Impact factor: 5.103

7.  The Mouse SAGE Site: database of public mouse SAGE libraries.

Authors:  Petr Divina; Jirí Forejt
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

8.  RTCGD: retroviral tagged cancer gene database.

Authors:  Keiko Akagi; Takeshi Suzuki; Robert M Stephens; Nancy A Jenkins; Neal G Copeland
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

9.  The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

Authors:  Daniela S Gerhard; Lukas Wagner; Elise A Feingold; Carolyn M Shenmen; Lynette H Grouse; Greg Schuler; Steven L Klein; Susan Old; Rebekah Rasooly; Peter Good; Mark Guyer; Allison M Peck; Jeffery G Derge; David Lipman; Francis S Collins; Wonhee Jang; Steven Sherry; Mike Feolo; Leonie Misquitta; Eduardo Lee; Kirill Rotmistrovsky; Susan F Greenhut; Carl F Schaefer; Kenneth Buetow; Tom I Bonner; David Haussler; Jim Kent; Mark Kiekhaus; Terry Furey; Michael Brent; Christa Prange; Kirsten Schreiber; Nicole Shapiro; Narayan K Bhat; Ralph F Hopkins; Florence Hsie; Tom Driscoll; M Bento Soares; Tom L Casavant; Todd E Scheetz; Michael J Brown-stein; Ted B Usdin; Shiraki Toshiyuki; Piero Carninci; Yulan Piao; Dawood B Dudekula; Minoru S H Ko; Koichi Kawakami; Yutaka Suzuki; Sumio Sugano; C E Gruber; M R Smith; Blake Simmons; Troy Moore; Richard Waterman; Stephen L Johnson; Yijun Ruan; Chia Lin Wei; S Mathavan; Preethi H Gunaratne; Jiaqian Wu; Angela M Garcia; Stephen W Hulyk; Edwin Fuh; Ye Yuan; Anna Sneed; Carla Kowis; Anne Hodgson; Donna M Muzny; John McPherson; Richard A Gibbs; Jessica Fahey; Erin Helton; Mark Ketteman; Anuradha Madan; Stephanie Rodrigues; Amy Sanchez; Michelle Whiting; Anup Madari; Alice C Young; Keith D Wetherby; Steven J Granite; Peggy N Kwong; Charles P Brinkley; Russell L Pearson; Gerard G Bouffard; Robert W Blakesly; Eric D Green; Mark C Dickson; Alex C Rodriguez; Jane Grimwood; Jeremy Schmutz; Richard M Myers; Yaron S N Butterfield; Malachi Griffith; Obi L Griffith; Martin I Krzywinski; Nancy Liao; Ryan Morin; Ryan Morrin; Diana Palmquist; Anca S Petrescu; Ursula Skalska; Duane E Smailus; Jeff M Stott; Angelique Schnerch; Jacqueline E Schein; Steven J M Jones; Robert A Holt; Agnes Baross; Marco A Marra; Sandra Clifton; Kathryn A Makowski; Stephanie Bosak; Joel Malek
Journal:  Genome Res       Date:  2004-10       Impact factor: 9.043

10.  Analysis of human mRNAs with the reference genome sequence reveals potential errors, polymorphisms, and RNA editing.

Authors:  Terrence S Furey; Mark Diekhans; Yontao Lu; Tina A Graves; Lachlan Oddy; Jennifer Randall-Maher; LaDeana W Hillier; Richard K Wilson; David Haussler
Journal:  Genome Res       Date:  2004-10       Impact factor: 9.043

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