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Literature DB >> 12697725

Comparative genomic tools and databases: providing insights into the human genome.

Len A Pennacchio¹, Edward M Rubin.

Abstract

Entities: Species

Mesh：

Year: 2003 PMID： 12697725 PMCID： PMC152942 DOI： 10.1172/JCI17842

Source DB: PubMed Journal: J Clin Invest ISSN： 0021-9738 Impact factor: 14.808

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42 in total

1. The Ensembl genome database project.

Authors: T Hubbard; D Barker; E Birney; G Cameron; Y Chen; L Clark; T Cox; J Cuff; V Curwen; T Down; R Durbin; E Eyras; J Gilbert; M Hammond; L Huminiecki; A Kasprzyk; H Lehvaslaiho; P Lijnzaad; C Melsopp; E Mongin; R Pettett; M Pocock; S Potter; A Rust; E Schmidt; S Searle; G Slater; J Smith; W Spooner; A Stabenau; J Stalker; E Stupka; A Ureta-Vidal; I Vastrik; M Clamp
Journal: Nucleic Acids Res Date: 2002-01-01 Impact factor: 16.971

2. BLAT--the BLAST-like alignment tool.

Authors: W James Kent
Journal: Genome Res Date: 2002-04 Impact factor: 9.043

3. SSAHA: a fast search method for large DNA databases.

Authors: Z Ning; A J Cox; J C Mullikin
Journal: Genome Res Date: 2001-10 Impact factor: 9.043

4. Transcriptional regulation of the stem cell leukemia gene (SCL)--comparative analysis of five vertebrate SCL loci.

Authors: Berthold Göttgens; Linda M Barton; Michael A Chapman; Angus M Sinclair; Bjarne Knudsen; Darren Grafham; James G R Gilbert; Jane Rogers; David R Bentley; Anthony R Green
Journal: Genome Res Date: 2002-05 Impact factor: 9.043

5. Basic local alignment search tool.

Authors: S F Altschul; W Gish; W Miller; E W Myers; D J Lipman
Journal: J Mol Biol Date: 1990-10-05 Impact factor: 5.469

Review 6. Evolutionary strategies for the elucidation of cis and trans factors that regulate the developmental switching programs of the beta-like globin genes.

Authors: D L Gumucio; D A Shelton; W Zhu; D Millinoff; T Gray; J H Bock; J L Slightom; M Goodman
Journal: Mol Phylogenet Evol Date: 1996-02 Impact factor: 4.286

Review 7. Human and mouse T-cell receptor loci: genomics, evolution, diversity, and serendipity.

Authors: L Hood; L Rowen; B F Koop
Journal: Ann N Y Acad Sci Date: 1995-06-30 Impact factor: 5.691

8. Deletion of a coordinate regulator of type 2 cytokine expression in mice.

Authors: M Mohrs; C M Blankespoor; Z E Wang; G G Loots; V Afzal; H Hadeiba; K Shinkai; E M Rubin; R M Locksley
Journal: Nat Immunol Date: 2001-09 Impact factor: 25.606

9. An apolipoprotein influencing triglycerides in humans and mice revealed by comparative sequencing.

Authors: L A Pennacchio; M Olivier; J A Hubacek; J C Cohen; D R Cox; J C Fruchart; R M Krauss; E M Rubin
Journal: Science Date: 2001-10-05 Impact factor: 47.728

10. The mouse beta-globin locus control region: hypersensitive sites 3 and 4.

Authors: G Jiménez; K B Gale; T Enver
Journal: Nucleic Acids Res Date: 1992-11-11 Impact factor: 16.971

18 in total

Review 1. Comparative genomic analysis as a tool for biological discovery.

Authors: Marcelo A Nobrega; Len A Pennacchio
Journal: J Physiol Date: 2004-01-01 Impact factor: 5.182

2. An intermediate grade of finished genomic sequence suitable for comparative analyses.

Authors: Robert W Blakesley; Nancy F Hansen; James C Mullikin; Pamela J Thomas; Jennifer C McDowell; Baishali Maskeri; Alice C Young; Beatrice Benjamin; Shelise Y Brooks; Bradley I Coleman; Jyoti Gupta; Shi-Ling Ho; Eric M Karlins; Quino L Maduro; Sirintorn Stantripop; Cyrus Tsurgeon; Jennifer L Vogt; Michelle A Walker; Catherine A Masiello; Xiaobin Guan; Gerard G Bouffard; Eric D Green
Journal: Genome Res Date: 2004-10-12 Impact factor: 9.043

10. Bridging cancer biology with the clinic: relative expression of a GRHL2-mediated gene-set pair predicts breast cancer metastasis.

Authors: Xinan Yang; Prabhakaran Vasudevan; Vishwas Parekh; Aleks Penev; John M Cunningham
Journal: PLoS One Date: 2013-02-18 Impact factor: 3.240

Comparative genomic tools and databases: providing insights into the human genome.

1. The Ensembl genome database project.

2. BLAT--the BLAST-like alignment tool.

3. SSAHA: a fast search method for large DNA databases.

4. Transcriptional regulation of the stem cell leukemia gene (SCL)--comparative analysis of five vertebrate SCL loci.

5. Basic local alignment search tool.

Review 6. Evolutionary strategies for the elucidation of cis and trans factors that regulate the developmental switching programs of the beta-like globin genes.

Review 7. Human and mouse T-cell receptor loci: genomics, evolution, diversity, and serendipity.

8. Deletion of a coordinate regulator of type 2 cytokine expression in mice.

9. An apolipoprotein influencing triglycerides in humans and mice revealed by comparative sequencing.

10. The mouse beta-globin locus control region: hypersensitive sites 3 and 4.

Review 1. Comparative genomic analysis as a tool for biological discovery.

2. An intermediate grade of finished genomic sequence suitable for comparative analyses.

3. Hormonal modulators of glial ABCA1 and apoE levels.

4. FoxA proteins regulate H19 endoderm enhancer E1 and exhibit developmental changes in enhancer binding in vivo.

5. Defining the mammalian CArGome.

Review 6. Genes for left ventricular hypertrophy.

7. Evolutionarily conserved sequence elements that positively regulate IFN-gamma expression in T cells.

8. Motifs and cis-regulatory modules mediating the expression of genes co-expressed in presynaptic neurons.

9. Marine organism cell biology and regulatory sequence discoveryin comparative functional genomics.

10. Bridging cancer biology with the clinic: relative expression of a GRHL2-mediated gene-set pair predicts breast cancer metastasis.