MIDAS: software for analysis and visualisation of interallelic disequilibrium between multiallelic markers.

BMC Bioinformatics
Tom R GauntIan N M Day

Abstract

Various software tools are available for the display of pairwise linkage disequilibrium across multiple single nucleotide polymorphisms. The HapMap project also presents these graphics within their website. However, these approaches are limited in their use of data from multiallelic markers and provide limited information in a graphical form. We have developed a software package (MIDAS - Multiallelic Interallelic Disequilibrium Analysis Software) for the estimation and graphical display of interallelic linkage disequilibrium. Linkage disequilibrium is analysed for each allelic combination (of one allele from each of two loci), between all pairwise combinations of any type of multiallelic loci in a contig (or any set) of many loci (including single nucleotide polymorphisms, microsatellites, minisatellites and haplotypes). Data are presented graphically in a novel and informative way, and can also be exported in tabular form for other analyses. This approach facilitates visualisation of patterns of linkage disequilibrium across genomic regions, analysis of the relationships between different alleles of multiallelic markers and inferences about patterns of evolution and selection. MIDAS is a linkage disequilibrium analysis program...Continue Reading

References

Feb 1, 1981·Annals of Human Genetics·S Karlin, A Piazza
Nov 5, 1997·International Journal of Obesity and Related Metabolic Disorders : Journal of the International Association for the Study of Obesity·S D O'DellI N Day
Nov 26, 1999·European Journal of Human Genetics : EJHG·S D O'DellI N Day
Jun 8, 2000·Bioinformatics·G R Abecasis, W O Cookson
Apr 23, 2002·Nature Reviews. Genetics·Kristin G ArdlieMark Seielstad
Dec 20, 2003·Nature·UNKNOWN International HapMap Consortium
Jan 30, 2004·Human Molecular Genetics·Santiago RodríguezIan N M Day
May 22, 2004·Nature Reviews. Genetics·UNKNOWN International HapMap Consortium
Jun 18, 2004·Bioinformatics·Fredrik PetterssonLon R Cardon
Aug 7, 2004·Bioinformatics·J C BarrettM J Daly
Nov 9, 2004·The Journal of Clinical Endocrinology and Metabolism·Ian N M DayDavid I W Phillips
Dec 21, 2004·Briefings in Bioinformatics·Jakob C Mueller
Mar 23, 2005·Gene·Javier CostasAngel Carracedo
Oct 28, 2005·European Journal of Human Genetics : EJHG·Santiago RodríguezIan N M Day
Oct 29, 2005·Nature·UNKNOWN International HapMap Consortium

❮ Previous
Next ❯

Citations

Apr 2, 2009·Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology·Joan P BreyerJeffrey R Smith
Apr 12, 2011·Journal of Geriatric Psychiatry and Neurology·R KohenC W Wilkinson
Apr 28, 2009·BMC Bioinformatics·Yoko FukudaShoji Tsuji
May 6, 2010·PLoS Genetics·Camilo SalazarChris D Jiggins
Jun 28, 2012·PLoS Genetics·Carolina Pardo-DiazChris D Jiggins
Mar 13, 2009·Clinical Chemistry and Laboratory Medicine : CCLM·Jan PetrásekMilan Jirsa
Dec 19, 2013·TheScientificWorldJournal·Abhishek Bohra
May 14, 2014·Journal of Applied Genetics·Magdalena Zatoń-DobrowolskaPiotr Przysiecki
Apr 23, 2010·Psychiatric Genetics·Henriette Nørmølle ButtenschønOle Mors
May 10, 2011·Medicine and Science in Sports and Exercise·Antti HuuskonenMustafa Atalay
Jan 7, 2010·Haemophilia : the Official Journal of the World Federation of Hemophilia·E Medina-Acosta
May 12, 2010·Molecular Ecology·Alisa P RamakrishnanMitchell B Cruzan
Oct 12, 2012·Animal Genetics·C L Brinkmeyer-LangfordL C Skow
Jun 13, 2019·Integrative and Comparative Biology·Adam J RamseyJennifer R Mandel
Jul 2, 2014·Molecular Biology Reports·Chunnan DongBin Cong
Sep 19, 2019·Journal of Atherosclerosis and Thrombosis·Zhibin LiWeihua Li
Nov 13, 2010·Haemophilia : the Official Journal of the World Federation of Hemophilia·F B MachadoE Medina-Acosta
May 23, 2012·Annals of Human Genetics·Santiago RodriguezIan N M Day

❮ Previous
Next ❯

Software Mentioned

DISEQ
Python
Alt
Celera
Haploview
MIDAS
Arlequin
GOLD
SNPFrequencyViewer
MIDAS : Multiallelic Interallelic Disequilibrium Analysis Soft...

Related Concepts

Related Feeds

Breast Cancer: BRCA1 & BRCA2

Mutations involving BRCA1, found on chromosome 17, and BRCA2, found on chromosome 13, increase the risk for specific cancers, such as breast cancer. Discover the last research on breast cancer BRCA1 and BRCA2 here.