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Items: 16

1.

The Pfam protein families database.

Finn RD, Tate J, Mistry J, Coggill PC, Sammut SJ, Hotz HR, Ceric G, Forslund K, Eddy SR, Sonnhammer EL, Bateman A.

Nucleic Acids Res. 2008 Jan;36(Database issue):D281-8. Epub 2007 Nov 26.

2.

Mendelian Inheritance in Man and its online version, OMIM.

McKusick VA.

Am J Hum Genet. 2007 Apr;80(4):588-604. Epub 2007 Mar 8. No abstract available.

3.

CDD: a conserved domain database for interactive domain family analysis.

Marchler-Bauer A, Anderson JB, Derbyshire MK, DeWeese-Scott C, Gonzales NR, Gwadz M, Hao L, He S, Hurwitz DI, Jackson JD, Ke Z, Krylov D, Lanczycki CJ, Liebert CA, Liu C, Lu F, Lu S, Marchler GH, Mullokandov M, Song JS, Thanki N, Yamashita RA, Yin JJ, Zhang D, Bryant SH.

Nucleic Acids Res. 2007 Jan;35(Database issue):D237-40. Epub 2006 Nov 29.

4.

NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins.

Pruitt KD, Tatusova T, Maglott DR.

Nucleic Acids Res. 2007 Jan;35(Database issue):D61-5. Epub 2006 Nov 27.

5.

SMART 5: domains in the context of genomes and networks.

Letunic I, Copley RR, Pils B, Pinkert S, Schultz J, Bork P.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D257-60.

6.

The evolution of domain arrangements in proteins and interaction networks.

Bornberg-Bauer E, Beaussart F, Kummerfeld SK, Teichmann SA, Weiner J 3rd.

Cell Mol Life Sci. 2005 Feb;62(4):435-45. Review.

PMID:
15719170
7.

WebLogo: a sequence logo generator.

Crooks GE, Hon G, Chandonia JM, Brenner SE.

Genome Res. 2004 Jun;14(6):1188-90.

8.

Investigating protein domain combinations in complete proteomes.

Nikitin F, Lisacek F.

Comput Biol Chem. 2003 Oct;27(4-5):481-95.

PMID:
14642756
9.

The COG database: an updated version includes eukaryotes.

Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B, Koonin EV, Krylov DM, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Smirnov S, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA.

BMC Bioinformatics. 2003 Sep 11;4:41. Epub 2003 Sep 11.

10.

The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003.

Boeckmann B, Bairoch A, Apweiler R, Blatter MC, Estreicher A, Gasteiger E, Martin MJ, Michoud K, O'Donovan C, Phan I, Pilbout S, Schneider M.

Nucleic Acids Res. 2003 Jan 1;31(1):365-70.

11.

dbSNP: the NCBI database of genetic variation.

Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K.

Nucleic Acids Res. 2001 Jan 1;29(1):308-11.

12.

CATH--a hierarchic classification of protein domain structures.

Orengo CA, Michie AD, Jones S, Jones DT, Swindells MB, Thornton JM.

Structure. 1997 Aug 15;5(8):1093-108.

13.

Hidden Markov models.

Eddy SR.

Curr Opin Struct Biol. 1996 Jun;6(3):361-5. Review.

PMID:
8804822
14.

Mapping the protein universe.

Holm L, Sander C.

Science. 1996 Aug 2;273(5275):595-603. Review.

PMID:
8662544
15.

SCOP: a structural classification of proteins database for the investigation of sequences and structures.

Murzin AG, Brenner SE, Hubbard T, Chothia C.

J Mol Biol. 1995 Apr 7;247(4):536-40.

PMID:
7723011
16.

The multiplicity of domains in proteins.

Doolittle RF.

Annu Rev Biochem. 1995;64:287-314. Review.

PMID:
7574483

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