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Goldsurfer specifications

Information


Unique identifier OMICS_22804
Name Goldsurfer
Alternative names Gs2, Goldsurfer2
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Medium
Version 2
Stability No
Maintained No

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Publications for Goldsurfer

Goldsurfer citations

 (4)
library_books

Modeling associations between genetic markers using Bayesian networks

2010
Bioinformatics
PMCID: 2935421
PMID: 20823332
DOI: 10.1093/bioinformatics/btq392

[…] ficient (Liu and Lin, ). This active search of LD coefficients has been accompanied with the development of various tools that display LD measures in a comprehensive way. Examples of those tools are: GOLDsurfer (Pettersson et al., ), Haploview (Barrett et al., ) and LdCompare (Hao et al., ). This remarkable interest in developing new measures and tools for studying LD can be explained by the drama […]

library_books

Cubic exact solutions for the estimation of pairwise haplotype frequencies: implications for linkage disequilibrium analyses and a web tool 'CubeX'

2007
BMC Bioinformatics
PMCID: 2180187
PMID: 17980034
DOI: 10.1186/1471-2105-8-428

[…] haplotype frequencies [], and of other EM algorithms that enable the estimation of multilocus haplotype frequencies. Many programs exist that utilise variations on this approach, including: GOLD [], GOLDsurfer [], MIDAS [], Haploview [] and many others reviewed in [-]. The potential problem for these approaches is that algorithms may converge on one of the alternative roots of the cubic equation […]

library_books

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

2006
BMC Bioinformatics
PMCID: 1479374
PMID: 16643648
DOI: 10.1186/1471-2105-7-227

[…] ts and statistical tests), and many programs exist for that purpose (including Haploview, 2LD, Arlequin, GDA, DNAsp, ALLASS, DISEQ, DMAP, etc., reviewed in [] and []). Some software, such as GOLD [], GOLDsurfer [] and Haploview [], also include graphical displays enabling quick overviews of large regions. However, most packages are intended for use with single-nucleotide polymorphism (SNP) data in […]

call_split

Genetic Analysis of Completely Sequenced Disease Associated MHC Haplotypes Identifies Shuffling of Segments in Recent Human History

2006
PLoS Genet
PMCID: 1331980
PMID: 16440057
DOI: 10.1371/journal.pgen.0020009
call_split See protocol

[…] stimates of pairwise-disequilibrium coefficient—D′ []—between SNPs were obtained employing the ldmax program in the GOLD package []. Long-range LD patterns—high LD and LD breaks—were visualised using GOLDsurfer program []. Detailed haplotype-block structure according to Gabriel et al. (2002) [] criteria was also derived [] in order to cross-validate interpretations of the LD landscape in the regio […]

Citations

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Goldsurfer institution(s)
Department Bioinformatics, Wellcome Trust Centre, Oxford, UK; Molecular Discovery Informatics, GlaxoSmithKline Pharmaceuticals, Harlow, Essex, UK; Fred Hutchinson Cancer Research Center, Seattle, WA, USA
Goldsurfer funding source(s)
Supported by the Wellcome Trust, GlaxoSmithKline and the NIH.

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