Thomas PD - Search Results

1

Venter JC, Adams MD, Myers EW, Li PW, Mural RJ, Sutton GG, Smith HO, Yandell M, Evans CA, Holt RA, Gocayne JD, Amanatides P, Ballew RM, Huson DH, Wortman JR, Zhang Q, Kodira CD, Zheng XH, Chen L, Skupski M, Subramanian G, Thomas PD, Zhang J, Gabor Miklos GL, Nelson C, Broder S, Clark AG, Nadeau J, McKusick VA, Zinder N, Levine AJ, Roberts RJ, Simon M, Slayman C, Hunkapiller M, Bolanos R, Delcher A, Dew I, Fasulo D, Flanigan M, Florea L, Halpern A, Hannenhalli S, Kravitz S, Levy S, Mobarry C, Reinert K, Remington K, Abu-Threideh J, Beasley E, Biddick K, Bonazzi V, Brandon R, Cargill M, Chandramouliswaran I, Charlab R, Chaturvedi K, Deng Z, Di Francesco V, Dunn P, Eilbeck K, Evangelista C, Gabrielian AE, Gan W, Ge W, Gong F, Gu Z, Guan P, Heiman TJ, Higgins ME, Ji RR, Ke Z, Ketchum KA, Lai Z, Lei Y, Li Z, Li J, Liang Y, Lin X, Lu F, Merkulov GV, Milshina N, Moore HM, Naik AK, Narayan VA, Neelam B, Nusskern D, Rusch DB, Salzberg S, Shao W, Shue B, Sun J, Wang Z, Wang A, Wang X, Wang J, Wei M, Wides R, Xiao C, Yan C, Yao A, Ye J, Zhan M, Zhang W, Zhang H, Zhao Q, Zheng L, Zhong F, Zhong W, Zhu S, Zhao S, Gilbert D, Baumhueter S, Spier G, Carter C, Cravchik A, Woodage T, Ali F, … See abstract for full author list ➔ Venter JC, et al. Among authors: thomas pd, thomas r. Science. 2001 Feb 16;291(5507):1304-51. doi: 10.1126/science.1058040. Science. 2001. PMID: 11181995

2

Assessment of genome-wide protein function classification for Drosophila melanogaster.

Mi H, Vandergriff J, Campbell M, Narechania A, Majoros W, Lewis S, Thomas PD, Ashburner M. Mi H, et al. Among authors: thomas pd. Genome Res. 2003 Sep;13(9):2118-28. doi: 10.1101/gr.771603. Genome Res. 2003. PMID: 12952880 Free PMC article.

3

PANTHER: a library of protein families and subfamilies indexed by function.

Thomas PD, Campbell MJ, Kejariwal A, Mi H, Karlak B, Daverman R, Diemer K, Muruganujan A, Narechania A. Thomas PD, et al. Genome Res. 2003 Sep;13(9):2129-41. doi: 10.1101/gr.772403. Genome Res. 2003. PMID: 12952881 Free PMC article.

4

Coding single-nucleotide polymorphisms associated with complex vs. Mendelian disease: evolutionary evidence for differences in molecular effects.

Thomas PD, Kejariwal A. Thomas PD, et al. Proc Natl Acad Sci U S A. 2004 Oct 26;101(43):15398-403. doi: 10.1073/pnas.0404380101. Epub 2004 Oct 18. Proc Natl Acad Sci U S A. 2004. PMID: 15492219 Free PMC article.

5

Inferring nonneutral evolution from human-chimp-mouse orthologous gene trios.

Clark AG, Glanowski S, Nielsen R, Thomas PD, Kejariwal A, Todd MA, Tanenbaum DM, Civello D, Lu F, Murphy B, Ferriera S, Wang G, Zheng X, White TJ, Sninsky JJ, Adams MD, Cargill M. Clark AG, et al. Among authors: thomas pd. Science. 2003 Dec 12;302(5652):1960-3. doi: 10.1126/science.1088821. Science. 2003. PMID: 14671302

6

PANTHER: a browsable database of gene products organized by biological function, using curated protein family and subfamily classification.

Thomas PD, Kejariwal A, Campbell MJ, Mi H, Diemer K, Guo N, Ladunga I, Ulitsky-Lazareva B, Muruganujan A, Rabkin S, Vandergriff JA, Doremieux O. Thomas PD, et al. Nucleic Acids Res. 2003 Jan 1;31(1):334-41. doi: 10.1093/nar/gkg115. Nucleic Acids Res. 2003. PMID: 12520017 Free PMC article.

7

Applications for protein sequence-function evolution data: mRNA/protein expression analysis and coding SNP scoring tools.

Thomas PD, Kejariwal A, Guo N, Mi H, Campbell MJ, Muruganujan A, Lazareva-Ulitsky B. Thomas PD, et al. Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W645-50. doi: 10.1093/nar/gkl229. Nucleic Acids Res. 2006. PMID: 16912992 Free PMC article.

8

On the quality of tree-based protein classification.

Lazareva-Ulitsky B, Diemer K, Thomas PD. Lazareva-Ulitsky B, et al. Among authors: thomas pd. Bioinformatics. 2005 May 1;21(9):1876-90. doi: 10.1093/bioinformatics/bti244. Epub 2005 Jan 12. Bioinformatics. 2005. PMID: 15647305

9

PANTHER version 6: protein sequence and function evolution data with expanded representation of biological pathways.

Mi H, Guo N, Kejariwal A, Thomas PD. Mi H, et al. Among authors: thomas pd. Nucleic Acids Res. 2007 Jan;35(Database issue):D247-52. doi: 10.1093/nar/gkl869. Epub 2006 Nov 27. Nucleic Acids Res. 2007. PMID: 17130144 Free PMC article.

10

Ontology annotation: mapping genomic regions to biological function.

Thomas PD, Mi H, Lewis S. Thomas PD, et al. Curr Opin Chem Biol. 2007 Feb;11(1):4-11. doi: 10.1016/j.cbpa.2006.11.039. Epub 2007 Jan 5. Curr Opin Chem Biol. 2007. PMID: 17208035 Review.

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