BISQUE 1.0 – a human Genomic, Proteomic, and Transcriptomic Conversion tool

BISQUE 1.0

:: DESCRIPTION

BISQUE (The Biological Sequence Exchange) is a bioinformatics tool enabling locus and variant-specific conversion among human gene, transcript, and protein identifiers from several popular databases.

::DEVELOPER

Yu Lab 

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Python

:: DOWNLOAD

  BISQUE

:: MORE INFORMATION

Citation

BISQUE: locus- and variant-specific conversion of genomic, transcriptomic, and proteomic database identifiers.
Meyer MJ, Geske P, Yu H.
Bioinformatics. 2016 Jan 23. pii: btw043.

RegTools 0.5.2 – Integrated analysis of Genomic and Transcriptomic data for discovery of Splicing Variants in Cancer

RegTools 0.5.2

:: DESCRIPTION

RegTools is a set of tools that integrate DNA-seq and RNA-seq data to help interpret mutations in a regulatory and splicing context.

::DEVELOPER

The Griffith Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/MacOsX
  • Python

:: DOWNLOAD

RegTools

:: MORE INFORMATION

Citation

RegTools: Integrated analysis of genomic and transcriptomic data for discovery of splicing variants in cancer
Yang-Yang Feng, et al.
doi: https://doi.org/10.1101/436634

PORTRAIT 1.2 – Prediction of transcriptomic ncRNA by ab initio methods

PORTRAIT 1.2

:: DESCRIPTION

PORTRAIT (acronym for Prediction of transcriptomic ncRNA by ab initio methods) is an algorithm for identifying non-coding RNAs on a transcriptome context.

::DEVELOPER

Roberto Arrial ,Roberto Togawa

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 PORTRAIT

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2009 Aug 4;10:239. doi: 10.1186/1471-2105-10-239.
Screening non-coding RNAs in transcriptomes from neglected species using PORTRAIT: case study of the pathogenic fungus Paracoccidioides brasiliensis.
Arrial RT, Togawa RC, Brigido Mde M.