Tag: Purification

ISOpure 1.0 / ISOpureR 1.1.3 – Gene Expression Deconvolution and Purification

ISOpure 1.0 / ISOpureR 1.1.3

:: DESCRIPTION

ISOpure uses a set of tumor expression profiles and a panel of healthy tissue expression profiles to generate a purified cancer profile for each tumor sample, and an estimate of the proportion of RNA originating from cancerous cells.

ISOpureR: Deconvolution of Tumour Profiles

::DEVELOPER

QUON-TITATIVE BIOLOGY LAB

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / MacOsX / Windows
  • MatLab / R

:: DOWNLOAD

 ISOpure , ISOpureR

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2015 May 14;16:156. doi: 10.1186/s12859-015-0597-x.
ISOpureR: an R implementation of a computational purification algorithm of mixed tumour profiles.
Anghel CV, Quon G, Haider S, Nguyen F, Deshwar AG, Morris QD, Boutros PC

Genome Med. 2013 Mar 28;5(3):29.
Computational purification of individual tumor gene expression profiles leads to significant improvements in prognostic prediction.
Quon G, Haider S, Deshwar AG, Cui A, Boutros PC, Morris Q.

CRAPome v.0 – Contaminant Repository for Affinity Purification – Mass Spectrometry data

CRAPome 2.0

:: DESCRIPTION

CRAPome is a database of annotated negative controls contributed by the proteomics research community. It addresses the common problem of distinguishing real interactions from the non-specific background (also known as ‘contaminants’). The database and associated computational tools to score protein interactions are available online.

::DEVELOPER

Proteomics & Integrative Bioinformatics Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

NO

:: MORE INFORMATION

Citation

Nat Methods. 2013 Aug;10(8):730-6. doi: 10.1038/nmeth.2557. Epub 2013 Jul 7.
The CRAPome: a contaminant repository for affinity purification-mass spectrometry data.
Mellacheruvu D et al.

PPCpred – Crystallization, Purification, and Production Propensity Prediction

PPCpred

:: DESCRIPTION

PPCpred is designed for sequence-based prediction of protein crystallization, purification, and production propensity.

::DEVELOPER

Kurgan Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Bioinformatics. 2011 Jul 1;27(13):i24-33. doi: 10.1093/bioinformatics/btr229.
Sequence-based prediction of protein crystallization, purification and production propensity.
Mizianty MJ, Kurgan L.