PubMed

Maintenance of transposon-free regions throughout vertebrate evolution.

Simons C, Makunin IV, Pheasant M, Mattick JS.

BMC Genomics. 2007 Dec 20;8:470.PMID: 18093339 [PubMed - indexed for MEDLINE]Related articlesFree article

Transposon-free regions in mammalian genomes.

Simons C, Pheasant M, Makunin IV, Mattick JS.

Genome Res. 2006 Feb;16(2):164-72. Epub 2005 Dec 19.PMID: 16365385 [PubMed - indexed for MEDLINE]Related articlesFree article

Shuffling of cis-regulatory elements is a pervasive feature of the vertebrate lineage.

Sanges R, Kalmar E, Claudiani P, D'Amato M, Muller F, Stupka E.

Genome Biol. 2006;7(7):R56.PMID: 16859531 [PubMed - indexed for MEDLINE]Related articlesFree article

Arrays of ultraconserved non-coding regions span the loci of key developmental genes in vertebrate genomes.

Sandelin A, Bailey P, Bruce S, Engström PG, Klos JM, Wasserman WW, Ericson J, Lenhard B.

BMC Genomics. 2004 Dec 21;5(1):99.PMID: 15613238 [PubMed - indexed for MEDLINE]Related articlesFree article

Comparative genomics of ParaHox clusters of teleost fishes: gene cluster breakup and the retention of gene sets following whole genome duplications.

Siegel N, Hoegg S, Salzburger W, Braasch I, Meyer A.

BMC Genomics. 2007 Sep 6;8:312.PMID: 17822543 [PubMed - indexed for MEDLINE]Related articlesFree article

Molecular phylogeny of the antiangiogenic and neurotrophic serpin, pigment epithelium derived factor in vertebrates.

Xu X, Zhang SS, Barnstable CJ, Tombran-Tink J.

BMC Genomics. 2006 Oct 4;7:248.PMID: 17020603 [PubMed - indexed for MEDLINE]Related articlesFree article

Evolutionary conservation of regulatory elements in vertebrate Hox gene clusters.

Santini S, Boore JL, Meyer A.

Genome Res. 2003 Jun;13(6A):1111-22. Erratum in: Genome Res. 2003 Aug;13(8):1973. PMID: 12799348 [PubMed - indexed for MEDLINE]Related articlesFree article

Conserved distances between vertebrate highly conserved elements.

Sun H, Skogerbø G, Chen R.

Hum Mol Genet. 2006 Oct 1;15(19):2911-22. Epub 2006 Aug 21.PMID: 16923797 [PubMed - indexed for MEDLINE]Related articlesFree article

Asymmetrical distribution of non-conserved regulatory sequences at PHOX2B is reflected at the ENCODE loci and illuminates a possible genome-wide trend.

McGaughey DM, Stine ZE, Huynh JL, Vinton RM, McCallion AS.

BMC Genomics. 2009 Jan 7;10:8.PMID: 19128492 [PubMed - indexed for MEDLINE]Related articlesFree article

Evolution and comparative analysis of the MHC Class III inflammatory region.

Deakin JE, Papenfuss AT, Belov K, Cross JG, Coggill P, Palmer S, Sims S, Speed TP, Beck S, Graves JA.

BMC Genomics. 2006 Nov 2;7:281.PMID: 17081307 [PubMed - indexed for MEDLINE]Related articlesFree article

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 [PubMed - indexed for MEDLINE]Related articles

Parallel evolution of conserved non-coding elements that target a common set of developmental regulatory genes from worms to humans.

Vavouri T, Walter K, Gilks WR, Lehner B, Elgar G.

Genome Biol. 2007;8(2):R15.PMID: 17274809 [PubMed - indexed for MEDLINE]Related articlesFree article

Comparative genomics of the syndecans defines an ancestral genomic context associated with matrilins in vertebrates.

Chakravarti R, Adams JC.

BMC Genomics. 2006 Apr 18;7:83.PMID: 16620374 [PubMed - indexed for MEDLINE]Related articlesFree article

Retroviral enhancer detection insertions in zebrafish combined with comparative genomics reveal genomic regulatory blocks - a fundamental feature of vertebrate genomes.

Kikuta H, Fredman D, Rinkwitz S, Lenhard B, Becker TS.

Genome Biol. 2007;8 Suppl 1:S4. Review.PMID: 18047696 [PubMed - indexed for MEDLINE]Related articlesFree article

A highly conserved regulatory element controls hematopoietic expression of GATA-2 in zebrafish.

Yang Z, Jiang H, Zhao F, Shankar DB, Sakamoto KM, Zhang MQ, Lin S.

BMC Dev Biol. 2007 Aug 20;7:97.PMID: 17708765 [PubMed - indexed for MEDLINE]Related articlesFree article

A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts.

de la Calle-Mustienes E, Feijóo CG, Manzanares M, Tena JJ, Rodríguez-Seguel E, Letizia A, Allende ML, Gómez-Skarmeta JL.

Genome Res. 2005 Aug;15(8):1061-72. Epub 2005 Jul 15.PMID: 16024824 [PubMed - indexed for MEDLINE]Related articlesFree article

CONDOR: a database resource of developmentally associated conserved non-coding elements.

Woolfe A, Goode DK, Cooke J, Callaway H, Smith S, Snell P, McEwen GK, Elgar G.

BMC Dev Biol. 2007 Aug 30;7:100.PMID: 17760977 [PubMed - indexed for MEDLINE]Related articlesFree article

Molecular cloning and analysis of zebrafish voltage-gated sodium channel beta subunit genes: implications for the evolution of electrical signaling in vertebrates.

Chopra SS, Watanabe H, Zhong TP, Roden DM.

BMC Evol Biol. 2007 Jul 10;7:113.PMID: 17623065 [PubMed - indexed for MEDLINE]Related articlesFree article

Harbinger transposons and an ancient HARBI1 gene derived from a transposase.

Kapitonov VV, Jurka J.

DNA Cell Biol. 2004 May;23(5):311-24.PMID: 15169610 [PubMed - indexed for MEDLINE]Related articles

Comparative analyses of multi-species sequences from targeted genomic regions.

Thomas JW, Touchman JW, Blakesley RW, Bouffard GG, Beckstrom-Sternberg SM, Margulies EH, Blanchette M, Siepel AC, Thomas PJ, McDowell JC, Maskeri B, Hansen NF, Schwartz MS, Weber RJ, Kent WJ, Karolchik D, Bruen TC, Bevan R, Cutler DJ, Schwartz S, Elnitski L, Idol JR, Prasad AB, Lee-Lin SQ, Maduro VV, Summers TJ, Portnoy ME, Dietrich NL, Akhter N, Ayele K, Benjamin B, Cariaga K, Brinkley CP, Brooks SY, Granite S, Guan X, Gupta J, Haghighi P, Ho SL, Huang MC, Karlins E, Laric PL, Legaspi R, Lim MJ, Maduro QL, Masiello CA, Mastrian SD, McCloskey JC, Pearson R, Stantripop S, Tiongson EE, Tran JT, Tsurgeon C, Vogt JL, Walker MA, Wetherby KD, Wiggins LS, Young AC, Zhang LH, Osoegawa K, Zhu B, Zhao B, Shu CL, De Jong PJ, Lawrence CE, Smit AF, Chakravarti A, Haussler D, Green P, Miller W, Green ED.

Nature. 2003 Aug 14;424(6950):788-93.PMID: 12917688 [PubMed - indexed for MEDLINE]Related articles