Literature DB >> 15979195

Striking nucleotide frequency pattern at the borders of highly conserved vertebrate non-coding sequences.

Klaudia Walter1, Irina Abnizova, Greg Elgar, Walter R Gilks.   

Abstract

In a recent study, 1373 highly conserved non-coding elements (CNEs) were detected by aligning the human and Takifugu rubripes (Fugu) genomes. The remarkable degree of sequence conservation in CNEs compared with their surroundings suggested comparing the base composition within CNEs with their 5' and 3' flanking regions. The analysis reveals a novel, sharp and distinct signal of nucleotide frequency bias precisely at the border between CNEs and flanking regions.

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Year:  2005        PMID： 15979195     DOI： 10.1016/j.tig.2005.06.003

Source DB:  PubMed          Journal:  Trends Genet        ISSN： 0168-9525            Impact factor:   11.639


  13 in total

1.  Ultraconserved elements: analyses of dosage sensitivity, motifs and boundaries.

Authors:  Charleston W K Chiang; Adnan Derti; Daniel Schwartz; Michael F Chou; Joel N Hirschhorn; C-Ting Wu
Journal:  Genetics       Date:  2008-10-28       Impact factor: 4.562

2.  A genetic linkage map of the hermaphrodite teleost fish Sparus aurata L.

Authors:  Rafaella Franch; Bruno Louro; Matina Tsalavouta; Dimitris Chatziplis; Costas S Tsigenopoulos; Elena Sarropoulou; Jenny Antonello; Andonis Magoulas; Constantinos C Mylonas; Massimiliano Babbucci; Tomaso Patarnello; Deborah M Power; Giorgos Kotoulas; Luca Bargelloni
Journal:  Genetics       Date:  2006-09-01       Impact factor: 4.562

3.  Isolation and characterization of conserved non-coding sequences among rice (Oryza sativa L.) paralogous regions.

Authors:  Xianran Li; Lubin Tan; Liguo Wang; Songnian Hu; Chuanqing Sun
Journal:  Mol Genet Genomics       Date:  2008-09-30       Impact factor: 3.291

4.  Computational analysis and characterization of UCE-like elements (ULEs) in plant genomes.

Authors:  Konstantinos Kritsas; Samuel E Wuest; Daniel Hupalo; Andrew D Kern; Thomas Wicker; Ueli Grossniklaus
Journal:  Genome Res       Date:  2012-09-17       Impact factor: 9.043

5.  Fine scale structural variants distinguish the genomes of Drosophila melanogaster and D. pseudoobscura.

Authors:  Stuart J Macdonald; Anthony D Long
Journal:  Genome Biol       Date:  2006       Impact factor: 13.583

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

Authors:  Tanya Vavouri; Klaudia Walter; Walter R Gilks; Ben Lehner; Greg Elgar
Journal:  Genome Biol       Date:  2007       Impact factor: 13.583

7.  Drosophila functional elements are embedded in structurally constrained sequences.

Authors:  Ephraim Kenigsberg; Amos Tanay
Journal:  PLoS Genet       Date:  2013-05-30       Impact factor: 5.917

8.  Short sequence motifs, overrepresented in mammalian conserved non-coding sequences.

Authors:  Simon Minovitsky; Philip Stegmaier; Alexander Kel; Alexey S Kondrashov; Inna Dubchak
Journal:  BMC Genomics       Date:  2007-10-18       Impact factor: 3.969

Review 9.  The mystery of extreme non-coding conservation.

Authors:  Nathan Harmston; Anja Baresic; Boris Lenhard
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2013-11-11       Impact factor: 6.237

10.  Dynamic epigenetic control of highly conserved noncoding elements.

Authors:  Loqmane Seridi; Taewoo Ryu; Timothy Ravasi
Journal:  PLoS One       Date:  2014-10-07       Impact factor: 3.240
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