Tag: Association

BR_squared 1.12 – Bias-Reduced estimates via Bootstrap Resampling Association

BR_squared 1.12

:: DESCRIPTION

Br2 (Bias-Reduced estimates via Bootstrap Resampling) is a software designed to estimate bias-corrected OR and BETA values for association studies. The bootstrap method used is computationally intensive, however br2 can analyze most GWAS datasets and obtain point estimates in a few hours on a modern machine.

::DEVELOPER

Lei Sun

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux /  Windows / MacOsX
  • C Compiler
:: DOWNLOAD

  BR_squared

:: MORE INFORMATION

Citation

BR-squared: a practical solution to the winner’s curse in genome-wide scans.
Sun L, Dimitromanolakis A, Faye LL, Paterson AD, Waggott D; DCCT/EDIC Research Group, Bull SB.
Hum Genet. 2011 May;129(5):545-52

Genetranassoc 1.0 – Compute Association between Genome Loci and Expression Genetic Data

Genetranassoc 1.0

:: DESCRIPTION

Genetranassoc is a software to compute association (Spearman correlation coefficient) between genome loci and expression genetic data including permutation test

::DEVELOPER

Bios, University of GranadaGranada , Spain

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/Windows/MacOsX
  • C Compiler

:: DOWNLOAD

 Genetranassoc

:: MORE INFORMATION

ProbeLynx 1.2.2 – Update the Association of Microarray Probes to Genes

ProbeLynx 1.2.2

:: DESCRIPTION

ProbeLynx is a web-based tool for updating the association of microarray probes to genes. using the latest genomics sequence information and experimentally determined cross-hybridization cutoffs, ProbeLynx allows users to upload microarray probe sequences to re-examine probe specificity and provide annotation updates relevant to determining which gene(s) and transcript(s) are associated with a given probe.

::DEVELOPER

Brinkman Laboratory, Simon Fraser University

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 ProbeLynx

:: MORE INFORMATION

Citation

Roche FM, Hokamp K, Acab M, Babiuk LA, Hancock RE, Brinkman FS.
ProbeLynx: a tool for updating the association of microarray probes to genes.
Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W471-4. PMID: 15215432

TreeScan 1.0 – Genotype-phenotype Associations from Haplotype Trees

TreeScan 1.0

:: DESCRIPTION

TREESCAN is intended to provide p-values for the hypothesis of association between evolutionary clades and continuous traits, using haplotype trees.

::DEVELOPER

Phylogenomics Group at the University of Vigo

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / MacOsX / Linux

:: DOWNLOAD

 TreeScan

:: MORE INFORMATION

Citation:

Posada D, Maxwell TJ, Templeton AR.
TreeScan: a bioinformatic application to search for genotype/phenotype associations using haplotype trees.
Bioinformatics 2005 21 (9): 2130-2132.doi: 10.1093/bioinformatics/bti29