simDEF – Definition-based Semantic Similarity Measure of GO Terms for Functional Similarity Analysis of Genes

simDEF

:: DESCRIPTION

simDEF is an efficient method for measuring semantic similarity of GO terms using their GO definitions.

::DEVELOPER

Beiko lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Perl

:: DOWNLOAD

  simDEF

:: MORE INFORMATION

Citation:

simDEF: Definition-based Semantic Similarity Measure of Gene Ontology Terms for Functional Similarity Analysis of Genes.
Pesaranghader A, Matwin S, Sokolova M, Beiko RG.
Bioinformatics. 2015 Dec 26. pii: btv755.

SGFSC – Speeding Gene Functional Similarity Calculation

SGFSC

:: DESCRIPTION

SGFSC is a novel Speeding Gene Functional Similarity Calculation tool

::DEVELOPER

NClab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2016 Nov 4;17(1):445.
SGFSC: speeding the gene functional similarity calculation based on hash tables.
Tian Z, Wang C, Guo M, Liu X, Teng Z

SORA – Measure Gene Functional Similarity in GO Contex

SORA

:: DESCRIPTION

SORA offers an effective and reliable way to compare gene function based on Semantic Overlap Ration Annotation.

::DEVELOPER

NClab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Bioinformatics. 2013 Jun 1;29(11):1424-32. doi: 10.1093/bioinformatics/btt160. Epub 2013 Apr 9.
Measuring gene functional similarity based on group-wise comparison of GO terms.
Teng Z1, Guo M, Liu X, Dai Q, Wang C, Xuan P.

GFSAT 1.0 – Gene Functional Similarity Analysis Tools

GFSAT 1.0

:: DESCRIPTION

GFSAT is a web tool that can be used to Analysis the functional similarity of genes in the forms of “two genes”, “two gene groups “, and “pairwise gene groups” based on GO Annotation(GOA) and GO semantic similarity measurements.

::DEVELOPER

NCLab

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows
  • Java

:: DOWNLOAD

 GFSAT

:: MORE INFORMATION

Citation

Genomics. 2013 Jun;101(6):368-75. doi: 10.1016/j.ygeno.2013.04.010. Epub 2013 Apr 26.
A novel insight into Gene Ontology semantic similarity.
Xu Y1, Guo M, Shi W, Liu X, Wang C.