MassSorter 3.1 – Administrating and Analyzing data from Mass Spectrometry experiments on Proteins

MassSorter 3.1

:: DESCRIPTION

 MassSorter is a tool for administrating and analyzing data from mass spectrometry experiments on proteins with known amino acid sequences

::DEVELOPER

Harald Barsnes

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows/Linux/MacOsX
  • Java

:: DOWNLOAD

 MassSorter

:: MORE INFORMATION

Citation

MassSorter: a tool for administrating and analyzing data from mass spectrometry experiments on proteins with known amino acid sequences
Harald Barsnes, Svein-Ole Mikalsen and Ingvar Eidhammer
BMC Bioinformatics 2006, 7:42

ProClassify 1.4.2 – Proteomic data Classification

ProClassify 1.4.2

:: DESCRIPTION

 ProClassify is a tool for proteomic data classification. It was intended originally for high-resolution mass-spectrometry data classification, but it can be of use for datasets of a completely different nature as well.

::DEVELOPER

Genomics & Bioinformatics Graz, Graz University of Technology

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux / Windows / MacOsX
  • Java

:: DOWNLOAD

 ProClassify 

:: MORE INFORMATION

Citation

Yu J.S.,Ongarello S., Fiedler R., Chen X.W., Toffolo G., Cobelli C., Trajanoski Z.
Ovarian Cancer Identification Based on Dimensionality Reduction for High-Througput Mass Spectrometry Data.
Bioinformatics 2005;21:2200-2209

atBioNet – Network Analysis Tool for Genomics and Proteomics

atBioNet

:: DESCRIPTION

atBioNet is a free, user friendly, web-based network analysis tool for analyzing, visualizing, and interpreting genomics or proteomics data. The user supplies atBioNet with a list of proteins or genes, and atBioNet then creates an interactive graphical network model that can identify key functional modules. Pathway information from the Kyoto Encyclopedia of Genes and Genomes (KEGG) is directly integrated within atBioNet for enrichment analysis and assessment of the biological meaning of modules.

::DEVELOPER

the National Center for Toxicological Research (NCTR).

:: SCREENSHOTS

 REQUIREMENTS

  • Linux/Windows/MacOsX
  • Java

:: DOWNLOAD

 atBioNet

:: MORE INFORMATION

Citation

BMC Genomics. 2012 Jul 20;13(1):325. [Epub ahead of print]
atBioNet – an integrated network analysis tool for genomics and biomarker discovery.
Ding Y, Chen M, Liu Z, Ding D, Ye Y, Zhang M, Kelly R, Guo L, Su Z, Harris SC, Qian F, Ge W, Fang H, Xu X, Tong W.

 

SpotLink 1.0 – Proteomics tool for Organization and Visualization

SpotLink 1.0

:: DESCRIPTION

SpotLink is the tool for organizing proteomics raw data. The data includes 2D gel images, Mass Spectrometry (MS and MS/MS), protein expression profiles and etc.. The data is collected after a series of proteomics experiment and categorized by individual spot on gel.

::DEVELOPER

Primegens Team

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux/Windows/MacOsX
  • Java

:: DOWNLOAD

 SpotLink

:: MORE INFORMATION

BayesMix-MS – Analysis of Mass Spectrometry Proteomics data.

BayesMix-MS

:: DESCRIPTION

BayesMix-MS is a piece of computer software which can be used as a tool for the analysis of Mass Spectrometry Proteomics data.

::DEVELOPER

Kim-Anh Do, Ph.D.

:: SCREENSHOTS

N/A

: REQUIREMENTS

  • Windows

:: DOWNLOAD

 BayesMix-MS

:: MORE INFORMATION

Citation

Kim-Anh Do, Peter Mueller, Raj Bandyopadhya, Keith Baggerly (2008).
A Bayesian mixture model for protein biomarker discovery
Bayesian Modeling in Bioinformatics, Dey DK, Ghosh D, Mallick B (Eds), Chapman & Hall / CRC press

Open2Dprot 20060607 – Proteomics Exploratory Data Analysis Software

Open2Dprot 20060607

:: DESCRIPTION

The Open2Dprot project is a community effort to create an open source n-dimensional (n-D) protein expression data pipeline-analysis system. It is downloadable and could be used for exploratory data analysis of protein expression data across sets of n-dimensional (n-D) data from research experiments. In the initial phase, as early beta-level versions of the pipeline modules are created, they are made available for download and may be used for performing parts of the analysis. Interchangeable subproject modules are being developed for 2-dimensional data including 2D-PAGE (polyacrylamide gel electrophoresis). Initial support for 2D LC-MS, protein arrays and other data will also be provided. In the second phase, it will be expanded to handle data from other n-dimensional protein separation methods as well as more extensive analyses on these data.

::DEVELOPER

Open2Dprot Team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / MacOsX / Linux
  • Java

:: DOWNLOAD

 Open2Dprot

:: MORE INFORMATION

 

SPC Proteomics Tools 060107 – CDROM Image for SPC tools

SPC Proteomics Tools 060107

:: DESCRIPTION

SPC Proteomics Tools corom contains Seattle Proteome Center (SPC) – Proteomics Tools.

::DEVELOPER

Seattle Proteome Center

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Mac OsX

:: DOWNLOAD

 SPC Proteomics Tools

:: MORE INFORMATION

this CD image contains an old version of the SPC tools. Please see the TPP wiki page for the most updated information.