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Items: 1 to 20 of 125

1.

Unravelling cis-regulatory elements in the genome of the smallest photosynthetic eukaryote: phylogenetic footprinting in Ostreococcus.

Piganeau G, Vandepoele K, Gourbière S, Van de Peer Y, Moreau H.

J Mol Evol. 2009 Sep;69(3):249-59. doi: 10.1007/s00239-009-9271-0. Epub 2009 Aug 20.

PMID:
19693423
2.

The complete chloroplast and mitochondrial DNA sequence of Ostreococcus tauri: organelle genomes of the smallest eukaryote are examples of compaction.

Robbens S, Derelle E, Ferraz C, Wuyts J, Moreau H, Van de Peer Y.

Mol Biol Evol. 2007 Apr;24(4):956-68. Epub 2007 Jan 23.

PMID:
17251180
3.

Genome analysis of the smallest free-living eukaryote Ostreococcus tauri unveils many unique features.

Derelle E, Ferraz C, Rombauts S, Rouzé P, Worden AZ, Robbens S, Partensky F, Degroeve S, Echeynié S, Cooke R, Saeys Y, Wuyts J, Jabbari K, Bowler C, Panaud O, Piégu B, Ball SG, Ral JP, Bouget FY, Piganeau G, De Baets B, Picard A, Delseny M, Demaille J, Van de Peer Y, Moreau H.

Proc Natl Acad Sci U S A. 2006 Aug 1;103(31):11647-52. Epub 2006 Jul 25.

4.
5.

Evolution of conserved non-coding sequences within the vertebrate Hox clusters through the two-round whole genome duplications revealed by phylogenetic footprinting analysis.

Matsunami M, Sumiyama K, Saitou N.

J Mol Evol. 2010 Dec;71(5-6):427-36. doi: 10.1007/s00239-010-9396-1. Epub 2010 Oct 28.

PMID:
20981416
6.

The chloroplast genomes of the green algae Pyramimonas, Monomastix, and Pycnococcus shed new light on the evolutionary history of prasinophytes and the origin of the secondary chloroplasts of euglenids.

Turmel M, Gagnon MC, O'Kelly CJ, Otis C, Lemieux C.

Mol Biol Evol. 2009 Mar;26(3):631-48. doi: 10.1093/molbev/msn285. Epub 2008 Dec 12.

PMID:
19074760
7.

Identifying gene-independent noncoding functional elements in the yeast ribosomal DNA by phylogenetic footprinting.

Ganley AR, Hayashi K, Horiuchi T, Kobayashi T.

Proc Natl Acad Sci U S A. 2005 Aug 16;102(33):11787-92. Epub 2005 Aug 4.

8.

More robust detection of motifs in coexpressed genes by using phylogenetic information.

Monsieurs P, Thijs G, Fadda AA, De Keersmaecker SC, Vanderleyden J, De Moor B, Marchal K.

BMC Bioinformatics. 2006 Mar 20;7:160.

10.

Surveying phylogenetic footprints in large gene clusters: applications to Hox cluster duplications.

Prohaska SJ, Fried C, Flamm C, Wagner GP, Stadler PF.

Mol Phylogenet Evol. 2004 May;31(2):581-604.

PMID:
15062796
13.

Cracking the genome's second code: enhancer detection by combined phylogenetic footprinting and transgenic fish and frog embryos.

Allende ML, Manzanares M, Tena JJ, Feijóo CG, Gómez-Skarmeta JL.

Methods. 2006 Jul;39(3):212-9.

PMID:
16806968
14.

Phylogenetic footprinting and genome scanning identify vertebrate BMP response elements and new target genes.

von Bubnoff A, Peiffer DA, Blitz IL, Hayata T, Ogata S, Zeng Q, Trunnell M, Cho KW.

Dev Biol. 2005 May 15;281(2):210-26.

15.

New insights into the nature and phylogeny of prasinophyte antenna proteins: Ostreococcus tauri, a case study.

Six C, Worden AZ, Rodríguez F, Moreau H, Partensky F.

Mol Biol Evol. 2005 Nov;22(11):2217-30. Epub 2005 Jul 27.

PMID:
16049197
16.

Phylogenetic footprinting to find functional DNA elements.

Ganley AR, Kobayashi T.

Methods Mol Biol. 2007;395:367-80.

PMID:
17993686
17.

Properties of non-coding DNA and identification of putative cis-regulatory elements in Theileria parva.

Guo X, Silva JC.

BMC Genomics. 2008 Dec 3;9:582. doi: 10.1186/1471-2164-9-582.

18.

Genome-scale identification of Caenorhabditis elegans regulatory elements by tiling-array mapping of DNase I hypersensitive sites.

Shi B, Guo X, Wu T, Sheng S, Wang J, Skogerbø G, Zhu X, Chen R.

BMC Genomics. 2009 Feb 25;10:92. doi: 10.1186/1471-2164-10-92.

19.

Non-coding regulatory regions in genomes. Editorial.

Gomez Skarmeta JL.

Brief Funct Genomic Proteomic. 2009 Jul;8(4):213-4. doi: 10.1093/bfgp/elp034. No abstract available.

PMID:
19752043
20.

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