TBnovo – De novo Protein Sequencing by combining Top-down and Bottom-up Mass Spectrometry

TBnovo

:: DESCRIPTION

TBNovo is a de novo protein sequencing software tool which combines both top down and bottom up tandem mass spectra.

::DEVELOPER

Xiaowen Liu ,CCMS The Center for Computational Mass Spectrometry

:: REQUIREMENTS

  • Linux/Windows
  • JRE

:: DOWNLOAD

 TBnovo

:: MORE INFORMATION

Citation

J Proteome Res. 2014 Jul 3;13(7):3241-8. doi: 10.1021/pr401300m. Epub 2014 Jun 18.
De novo protein sequencing by combining top-down and bottom-up tandem mass spectra.
Liu X1, Dekker LJ, Wu S, Vanduijn MM, Luider TM, Tolić N, Kou Q, Dvorkin M, Alexandrova S, Vyatkina K, Paša-Tolić L, Pevzner PA.

CHAMPS – Complete Homology Assisted MS/MS Protein Sequencing

CHAMPS

:: DESCRIPTION

CHAMPS is software for computing the complete sequence of a protein from the tandem mass spectrometry data of multiple-enzyme digests of the protein.

::DEVELOPER

Xiaowen Liu ,CCMS The Center for Computational Mass Spectrometry

:: REQUIREMENTS

  • Linux/Windows
  • JRE

:: DOWNLOAD

 CHAMPS

:: MORE INFORMATION

MetaSPS 7.332 – De novo Protein Sequencing

MetaSPS 7.332

:: DESCRIPTION

MetaSPS was shown to yield the longest and most accurate de novo sequences from tandem mass spectrometry data at nearly full sequence coverage.

::DEVELOPER

Nuno BandeiraAdrian Guthals [aguthals (at) cs.ucsd.edu] ,CCMS The Center for Computational Mass Spectrometry

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/ Windows/ MacOsX

:: DOWNLOAD

 MetaSPS

:: MORE INFORMATION

Citation

Mol Cell Proteomics. 2012 Oct;11(10):1084-96. Epub 2012 Jul 13.
Shotgun protein sequencing with meta-contig assembly.
Guthals A1, Clauser KR, Bandeira N.

SequenceAssignCompare 20111109 – Automated MALDI-ISD Protein Sequencing Software

SequenceAssignCompare 20111109

:: DESCRIPTION

SequenceAssignCompare is a software for amino acid sequence determination from MALDI-ISD spectra.

::DEVELOPER

The Mass Spectrometry Laboratory 

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux / Windows / MacOsX
  • Java

:: DOWNLOAD

 SequenceAssignCompare

:: MORE INFORMATION

Citation

T. A. Zimmerman, D. Debois, G. Mazzucchelli, V. Bertrand, M. C. De Pauw-Gillet, E. De Pauw.
An Analytical Pipeline for MALDI In-Source Decay Mass Spectrometry Imaging of Proteins.”
Anal. Chem., 2011, 83, 6090–6097