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Items 1 - 20 of 148
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1:

Genomic analysis of membrane protein families: abundance and conserved motifs.

Liu Y, Engelman DM, Gerstein M.

Genome Biol. 2002 Sep 19;3(10):research0054. Epub 2002 Sep 19.

PMID: 12372142 [PubMed - indexed for MEDLINE]

2:

Analysis of protein domain families in Caenorhabditis elegans.

Sonnhammer EL, Durbin R.

Genomics. 1997 Dec 1;46(2):200-16.

PMID: 9417907 [PubMed - indexed for MEDLINE]

3:

Proportion of membrane proteins in proteomes of 15 single-cell organisms analyzed by the SOSUI prediction system.

Mitaku S, Ono M, Hirokawa T, Boon-Chieng S, Sonoyama M.

Biophys Chem. 1999 Dec 13;82(2-3):165-71.

PMID: 10631799 [PubMed - indexed for MEDLINE]

4:

Annotation transfer between genomes: protein-protein interologs and protein-DNA regulogs.

Yu H, Luscombe NM, Lu HX, Zhu X, Xia Y, Han JD, Bertin N, Chung S, Vidal M, Gerstein M.

Genome Res. 2004 Jun;14(6):1107-18.

PMID: 15173116 [PubMed - indexed for MEDLINE]

5:

Molecular phylogeny of the kelch-repeat superfamily reveals an expansion of BTB/kelch proteins in animals.

Prag S, Adams JC.

BMC Bioinformatics. 2003 Sep 17;4:42. Epub 2003 Sep 17.

PMID: 13678422 [PubMed - indexed for MEDLINE]

6:

Classification of transmembrane protein families in the Caenorhabditis elegans genome and identification of human orthologs.

Remm M, Sonnhammer E.

Genome Res. 2000 Nov;10(11):1679-89.

PMID: 11076853 [PubMed - indexed for MEDLINE]

7:

The ABC transporter gene family of Caenorhabditis elegans has implications for the evolutionary dynamics of multidrug resistance in eukaryotes.

Sheps JA, Ralph S, Zhao Z, Baillie DL, Ling V.

Genome Biol. 2004;5(3):R15. Epub 2004 Feb 11.

PMID: 15003118 [PubMed - indexed for MEDLINE]

8:

Genome-wide analysis of integral membrane proteins from eubacterial, archaean, and eukaryotic organisms.

Wallin E, von Heijne G.

Protein Sci. 1998 Apr;7(4):1029-38.

PMID: 9568909 [PubMed - indexed for MEDLINE]

9:

Comparing genomes in terms of protein structure: surveys of a finite parts list.

Gerstein M, Hegyi H.

FEMS Microbiol Rev. 1998 Oct;22(4):277-304. Review.

PMID: 10357579 [PubMed - indexed for MEDLINE]

11:

The genome sequence of Caenorhabditis briggsae: a platform for comparative genomics.

Stein LD, Bao Z, Blasiar D, Blumenthal T, Brent MR, Chen N, Chinwalla A, Clarke L, Clee C, Coghlan A, Coulson A, D'Eustachio P, Fitch DH, Fulton LA, Fulton RE, Griffiths-Jones S, Harris TW, Hillier LW, Kamath R, Kuwabara PE, Mardis ER, Marra MA, Miner TL, Minx P, Mullikin JC, Plumb RW, Rogers J, Schein JE, Sohrmann M, Spieth J, Stajich JE, Wei C, Willey D, Wilson RK, Durbin R, Waterston RH.

PLoS Biol. 2003 Nov;1(2):E45. Epub 2003 Nov 17.

PMID: 14624247 [PubMed - indexed for MEDLINE]

12:

Classification of all putative permeases and other membrane plurispanners of the major facilitator superfamily encoded by the complete genome of Saccharomyces cerevisiae.

Nelissen B, De Wachter R, Goffeau A.

FEMS Microbiol Rev. 1997 Sep;21(2):113-34. Review.

PMID: 9348664 [PubMed - indexed for MEDLINE]

13:

Abundant protein domains occur in proportion to proteome size.

Malek JA.

Genome Biol. 2001;2(9):RESEARCH0039. Epub 2001 Aug 24.

PMID: 11574058 [PubMed - indexed for MEDLINE]

14:

Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.

Riechmann JL, Heard J, Martin G, Reuber L, Jiang C, Keddie J, Adam L, Pineda O, Ratcliffe OJ, Samaha RR, Creelman R, Pilgrim M, Broun P, Zhang JZ, Ghandehari D, Sherman BK, Yu G.

Science. 2000 Dec 15;290(5499):2105-10.

PMID: 11118137 [PubMed - indexed for MEDLINE]

15:

Computational identification of novel chitinase-like proteins in the Drosophila melanogaster genome.

Zhu Q, Deng Y, Vanka P, Brown SJ, Muthukrishnan S, Kramer KJ.

Bioinformatics. 2004 Jan 22;20(2):161-9.

PMID: 14734306 [PubMed - indexed for MEDLINE]

16:

Structural classification and prediction of reentrant regions in alpha-helical transmembrane proteins: application to complete genomes.

Viklund H, Granseth E, Elofsson A.

J Mol Biol. 2006 Aug 18;361(3):591-603. Epub 2006 Jul 5.

PMID: 16860824 [PubMed - indexed for MEDLINE]

17:

A novel family of P-loop NTPases with an unusual phyletic distribution and transmembrane segments inserted within the NTPase domain.

Aravind L, Iyer LM, Leipe DD, Koonin EV.

Genome Biol. 2004;5(5):R30. Epub 2004 Apr 16.

PMID: 15128444 [PubMed - indexed for MEDLINE]

18:

A genome-wide survey of RS domain proteins.

Boucher L, Ouzounis CA, Enright AJ, Blencowe BJ.

RNA. 2001 Dec;7(12):1693-701.

PMID: 11780626 [PubMed - indexed for MEDLINE]

19:

Evolutionarily conserved multiple C2 domain proteins with two transmembrane regions (MCTPs) and unusual Ca2+ binding properties.

Shin OH, Han W, Wang Y, Südhof TC.

J Biol Chem. 2005 Jan 14;280(2):1641-51. Epub 2004 Nov 4.

PMID: 15528213 [PubMed - indexed for MEDLINE]

20:

The rhomboids: a nearly ubiquitous family of intramembrane serine proteases that probably evolved by multiple ancient horizontal gene transfers.

Koonin EV, Makarova KS, Rogozin IB, Davidovic L, Letellier MC, Pellegrini L.

Genome Biol. 2003;4(3):R19. Epub 2003 Feb 28.

PMID: 12620104 [PubMed - indexed for MEDLINE]

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