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1:

Phylogenetic profiling of the Arabidopsis thaliana proteome: what proteins distinguish plants from other organisms?

Gutiérrez RA, Green PJ, Keegstra K, Ohlrogge JB.

Genome Biol. 2004;5(8):R53. Epub 2004 Jul 15.

PMID: 15287975 [PubMed - indexed for MEDLINE]

2:

Genome-scale proteomics reveals Arabidopsis thaliana gene models and proteome dynamics.

Baerenfaller K, Grossmann J, Grobei MA, Hull R, Hirsch-Hoffmann M, Yalovsky S, Zimmermann P, Grossniklaus U, Gruissem W, Baginsky S.

Science. 2008 May 16;320(5878):938-41. Epub 2008 Apr 24.

PMID: 18436743 [PubMed - indexed for MEDLINE]

3:

Phosphoproteomics of the Arabidopsis plasma membrane and a new phosphorylation site database.

Nühse TS, Stensballe A, Jensen ON, Peck SC.

Plant Cell. 2004 Sep;16(9):2394-405. Epub 2004 Aug 12.

PMID: 15308754 [PubMed - indexed for MEDLINE]

4:

Conservation, diversification and expansion of C2H2 zinc finger proteins in the Arabidopsis thaliana genome.

Englbrecht CC, Schoof H, Böhm S.

BMC Genomics. 2004 Jul 5;5(1):39.

PMID: 15236668 [PubMed - indexed for MEDLINE]

5:

Exploring the plant transcriptome through phylogenetic profiling.

Vandepoele K, Van de Peer Y.

Plant Physiol. 2005 Jan;137(1):31-42.

PMID: 15644465 [PubMed - indexed for MEDLINE]

6:

Genome-wide comparative analysis of the IQD gene families in Arabidopsis thaliana and Oryza sativa.

Abel S, Savchenko T, Levy M.

BMC Evol Biol. 2005 Dec 20;5:72.

PMID: 16368012 [PubMed - indexed for MEDLINE]

8:

Conservation, convergence, and divergence of light-responsive, circadian-regulated, and tissue-specific expression patterns during evolution of the Arabidopsis GATA gene family.

Manfield IW, Devlin PF, Jen CH, Westhead DR, Gilmartin PM.

Plant Physiol. 2007 Feb;143(2):941-58. Epub 2007 Jan 5.

PMID: 17208962 [PubMed - indexed for MEDLINE]

9:

The Arabidopsis thaliana genome contains at least 29 active genes encoding SET domain proteins that can be assigned to four evolutionarily conserved classes.

Baumbusch LO, Thorstensen T, Krauss V, Fischer A, Naumann K, Assalkhou R, Schulz I, Reuter G, Aalen RB.

Nucleic Acids Res. 2001 Nov 1;29(21):4319-33.

PMID: 11691919 [PubMed - indexed for MEDLINE]

10:

The Arabidopsis basic/helix-loop-helix transcription factor family.

Toledo-Ortiz G, Huq E, Quail PH.

Plant Cell. 2003 Aug;15(8):1749-70.

PMID: 12897250 [PubMed - indexed for MEDLINE]

11:

Genome-wide analysis of S-Locus F-box-like genes in Arabidopsis thaliana.

Wang L, Dong L, Zhang Y, Zhang Y, Wu W, Deng X, Xue Y.

Plant Mol Biol. 2004 Dec;56(6):929-45. Epub 2005 Apr 7.

PMID: 15821991 [PubMed - indexed for MEDLINE]

12:

Activation of CRABS CLAW in the Nectaries and Carpels of Arabidopsis.

Lee JY, Baum SF, Alvarez J, Patel A, Chitwood DH, Bowman JL.

Plant Cell. 2005 Jan;17(1):25-36. Epub 2004 Dec 14.

PMID: 15598802 [PubMed - indexed for MEDLINE]

13:

Assembly of a gene sequence tag microarray by reversible biotin-streptavidin capture for transcript analysis of Arabidopsis thaliana.

Wirta V, Holmberg A, Lukacs M, Nilsson P, Hilson P, Uhlén M, Bhalerao RP, Lundeberg J.

BMC Biotechnol. 2005 Feb 3;5:5.

PMID: 15689241 [PubMed - indexed for MEDLINE]

14:

Genome-wide analysis of basic/helix-loop-helix transcription factor family in rice and Arabidopsis.

Li X, Duan X, Jiang H, Sun Y, Tang Y, Yuan Z, Guo J, Liang W, Chen L, Yin J, Ma H, Wang J, Zhang D.

Plant Physiol. 2006 Aug;141(4):1167-84.

PMID: 16896230 [PubMed - indexed for MEDLINE]

15:

Coiled-coil protein composition of 22 proteomes--differences and common themes in subcellular infrastructure and traffic control.

Rose A, Schraegle SJ, Stahlberg EA, Meier I.

BMC Evol Biol. 2005 Nov 16;5:66.

PMID: 16288662 [PubMed - indexed for MEDLINE]

16:

Homeodomain leucine zipper class I genes in Arabidopsis. Expression patterns and phylogenetic relationships.

Henriksson E, Olsson AS, Johannesson H, Johansson H, Hanson J, Engström P, Söderman E.

Plant Physiol. 2005 Sep;139(1):509-18. Epub 2005 Jul 29.

PMID: 16055682 [PubMed - indexed for MEDLINE]

17:

Genomic and proteomic analysis of mitochondrial carrier proteins in Arabidopsis.

Millar AH, Heazlewood JL.

Plant Physiol. 2003 Feb;131(2):443-53.

PMID: 12586869 [PubMed - indexed for MEDLINE]

18:

Molecular and phylogenetic analyses of the complete MADS-box transcription factor family in Arabidopsis: new openings to the MADS world.

Parenicová L, de Folter S, Kieffer M, Horner DS, Favalli C, Busscher J, Cook HE, Ingram RM, Kater MM, Davies B, Angenent GC, Colombo L.

Plant Cell. 2003 Jul;15(7):1538-51.

PMID: 12837945 [PubMed - indexed for MEDLINE]

19:

Genome-wide analysis of the cyclin family in Arabidopsis and comparative phylogenetic analysis of plant cyclin-like proteins.

Wang G, Kong H, Sun Y, Zhang X, Zhang W, Altman N, DePamphilis CW, Ma H.

Plant Physiol. 2004 Jun;135(2):1084-99.

PMID: 15208425 [PubMed - indexed for MEDLINE]

20:

Unique genes in plants: specificities and conserved features throughout evolution.

Armisén D, Lecharny A, Aubourg S.

BMC Evol Biol. 2008 Oct 10;8:280.

PMID: 18847470 [PubMed - indexed for MEDLINE]

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