Literature DB >> 22255599

Estimation of correlations between copy-number variants in non-coding DNA.

Catherine Stamoulis1.   

Abstract

Allelic DNA aberrations across our genome have been associated with normal human genetic heterogeneity as well as with a number of diseases and disorders. When copy-number variations (CNVs) occur in gene-coding regions, known relationships between genes may help us understand correlations between CNVs. However, a large number of these aberrations occur in non-coding, extragenic regions and their correlations may be characterized only quantitatively, e.g., probabilistically, but not functionally. Using a signal processing approach to CNV detection, we identified distributed CNVs in short, non-coding regions across chromosomes and investigated their potential correlations. We estimated predominantly local correlations between CNVs within the same chromosome, and a small number of apparently random long-distance correlations.

Entities:  

Mesh:

Substances:

Year:  2011        PMID: 22255599      PMCID: PMC3261508          DOI: 10.1109/IEMBS.2011.6091345

Source DB:  PubMed          Journal:  Conf Proc IEEE Eng Med Biol Soc        ISSN: 1557-170X


  20 in total

1.  Discovering regulatory elements in non-coding sequences by analysis of spaced dyads.

Authors:  J van Helden; A F Rios; J Collado-Vides
Journal:  Nucleic Acids Res       Date:  2000-04-15       Impact factor: 16.971

2.  Ultraconserved elements in the human genome.

Authors:  Gill Bejerano; Michael Pheasant; Igor Makunin; Stuart Stephen; W James Kent; John S Mattick; David Haussler
Journal:  Science       Date:  2004-05-06       Impact factor: 47.728

3.  Detection of large-scale variation in the human genome.

Authors:  A John Iafrate; Lars Feuk; Miguel N Rivera; Marc L Listewnik; Patricia K Donahoe; Ying Qi; Stephen W Scherer; Charles Lee
Journal:  Nat Genet       Date:  2004-08-01       Impact factor: 38.330

4.  A novel signal processing approach for the detection of copy number variations in the human genome.

Authors:  Catherine Stamoulis; Rebecca A Betensky
Journal:  Bioinformatics       Date:  2011-07-12       Impact factor: 6.937

Review 5.  Methods and strategies for analyzing copy number variation using DNA microarrays.

Authors:  Nigel P Carter
Journal:  Nat Genet       Date:  2007-07       Impact factor: 38.330

Review 6.  Conserved non-genic sequences - an unexpected feature of mammalian genomes.

Authors:  Emmanouil T Dermitzakis; Alexandre Reymond; Stylianos E Antonarakis
Journal:  Nat Rev Genet       Date:  2005-02       Impact factor: 53.242

7.  Accelerated evolution of conserved noncoding sequences in humans.

Authors:  Shyam Prabhakar; James P Noonan; Svante Pääbo; Edward M Rubin
Journal:  Science       Date:  2006-11-03       Impact factor: 47.728

8.  Global variation in copy number in the human genome.

Authors:  Richard Redon; Shumpei Ishikawa; Karen R Fitch; Lars Feuk; George H Perry; T Daniel Andrews; Heike Fiegler; Michael H Shapero; Andrew R Carson; Wenwei Chen; Eun Kyung Cho; Stephanie Dallaire; Jennifer L Freeman; Juan R González; Mònica Gratacòs; Jing Huang; Dimitrios Kalaitzopoulos; Daisuke Komura; Jeffrey R MacDonald; Christian R Marshall; Rui Mei; Lyndal Montgomery; Kunihiro Nishimura; Kohji Okamura; Fan Shen; Martin J Somerville; Joelle Tchinda; Armand Valsesia; Cara Woodwark; Fengtang Yang; Junjun Zhang; Tatiana Zerjal; Jane Zhang; Lluis Armengol; Donald F Conrad; Xavier Estivill; Chris Tyler-Smith; Nigel P Carter; Hiroyuki Aburatani; Charles Lee; Keith W Jones; Stephen W Scherer; Matthew E Hurles
Journal:  Nature       Date:  2006-11-23       Impact factor: 49.962

9.  Comparative genomic hybridization for molecular cytogenetic analysis of solid tumors.

Authors:  A Kallioniemi; O P Kallioniemi; D Sudar; D Rutovitz; J W Gray; F Waldman; D Pinkel
Journal:  Science       Date:  1992-10-30       Impact factor: 47.728

Review 10.  The mammalian transcriptome and the function of non-coding DNA sequences.

Authors:  Svetlana A Shabalina; Nikolay A Spiridonov
Journal:  Genome Biol       Date:  2004-03-25       Impact factor: 13.583

View more
  1 in total

1.  Deciphering the associations between gene expression and copy number alteration using a sparse double Laplacian shrinkage approach.

Authors:  Xingjie Shi; Qing Zhao; Jian Huang; Yang Xie; Shuangge Ma
Journal:  Bioinformatics       Date:  2015-09-03       Impact factor: 6.937

  1 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.