Literature DB >> 12835279

HaploBlockFinder: haplotype block analyses.

Kun Zhang1, Li Jin.   

Abstract

UNLABELLED: Recent studies have unveiled discrete block-like structures of linkage disequilibrium (LD) in the human genome. We have developed a set of computer programs to analyze the block-like LD structures (haplotype blocks) based on haplotype data. Three definitions of haplotype block are supported, including minimal LD range, no historic recombination, and chromosome coverage. Tagged SNPs that uniquely distinguish common haplotypes are identified. A greedy algorithm was used to improve the efficiency. Two separate utilities were also provided to assist visual inspection of haplotype block structure and pattern of linkage disequilibrium. AVAILABILITY: A web interface for the HaploBlockFinder is available at http://cgi.uc.edu/cgi-bin/kzhang/haploBlockFinder.cgi the source codes are also freely available on the web site.

Entities:  

Mesh：

Year:  2003        PMID： 12835279     DOI： 10.1093/bioinformatics/btg142

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  44 in total

1.  Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium.

Authors:  Christopher S Carlson; Michael A Eberle; Mark J Rieder; Qian Yi; Leonid Kruglyak; Deborah A Nickerson
Journal:  Am J Hum Genet       Date:  2003-12-15       Impact factor: 11.025

2.  Graphical modeling of the joint distribution of alleles at associated loci.

Authors:  Alun Thomas; Nicola J Camp
Journal:  Am J Hum Genet       Date:  2004-04-26       Impact factor: 11.025

3.  Haplotype diversity across 100 candidate genes for inflammation, lipid metabolism, and blood pressure regulation in two populations.

Authors:  Dana C Crawford; Christopher S Carlson; Mark J Rieder; Dana P Carrington; Qian Yi; Joshua D Smith; Michael A Eberle; Leonid Kruglyak; Deborah A Nickerson
Journal:  Am J Hum Genet       Date:  2004-03-10       Impact factor: 11.025

4.  Nucleotide diversity and linkage disequilibrium in cold-hardiness- and wood quality-related candidate genes in Douglas fir.

Authors:  Konstantin V Krutovsky; David B Neale
Journal:  Genetics       Date:  2005-09-12       Impact factor: 4.562

5.  Linkage disequilibrium patterns and tagSNP transferability among European populations.

Authors:  Jakob C Mueller; Elin Lõhmussaar; Reedik Mägi; Maido Remm; Thomas Bettecken; Peter Lichtner; Saskia Biskup; Thomas Illig; Arne Pfeufer; Jan Luedemann; Stefan Schreiber; Peter Pramstaller; Irene Pichler; Giovanni Romeo; Anthony Gaddi; Alessandra Testa; Heinz-Erich Wichmann; Andres Metspalu; Thomas Meitinger
Journal:  Am J Hum Genet       Date:  2005-01-06       Impact factor: 11.025

6.  Accuracy of haplotype reconstruction from haplotype-tagging single-nucleotide polymorphisms.

Authors:  Julian Forton; Dominic Kwiatkowski; Kirk Rockett; Gaia Luoni; Martin Kimber; Jeremy Hull
Journal:  Am J Hum Genet       Date:  2005-01-19       Impact factor: 11.025

7.  htSNPer1.0: software for haplotype block partition and htSNPs selection.

Authors:  Keyue Ding; Jing Zhang; Kaixin Zhou; Yan Shen; Xuegong Zhang
Journal:  BMC Bioinformatics       Date:  2005-03-01       Impact factor: 3.169

8.  Resequencing of serotonin-related genes and association of tagging SNPs to citalopram response.

Authors:  Eric J Peters; Susan L Slager; Greg D Jenkins; Megan S Reinalda; Holly A Garriock; Stanley I Shyn; Jeffrey B Kraft; Patrick J McGrath; Steven P Hamilton
Journal:  Pharmacogenet Genomics       Date:  2009-01       Impact factor: 2.089

9.  Haplotype analysis of the apolipoprotein gene cluster on human chromosome 11.

Authors:  Michael Olivier; Xujing Wang; Regina Cole; Brian Gau; Jessica Kim; Edward M Rubin; Len A Pennacchio
Journal:  Genomics       Date:  2004-05       Impact factor: 5.736

10.  Human dopamine beta-hydroxylase (DBH) regulatory polymorphism that influences enzymatic activity, autonomic function, and blood pressure.

Authors:  Yuqing Chen; Gen Wen; Fangwen Rao; Kuixing Zhang; Lei Wang; Juan L Rodriguez-Flores; Amber P Sanchez; Manjula Mahata; Laurent Taupenot; Ping Sun; Sushil K Mahata; Bamidele Tayo; Nicholas J Schork; Michael G Ziegler; Bruce A Hamilton; Daniel T O'Connor
Journal:  J Hypertens       Date:  2010-01       Impact factor: 4.844
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.