mass spectrometry for proteomics

What is Mass-Up?

Mass-Up is an open-source mass spectrometry software for proteomics designed to support the preprocessing and Machine-Learning based analysis of MALDI-TOF mass spectrometry data.

DI Data input

Mass-Up loads data from:

  • mzML
  • mzXML
  • CSV

A Analysis

Mass-Up includes the following analyses:

  • Quality Control
  • Biomarker discovery
  • Principal Component Analysis
  • Hierarchical clustering
  • Biclustering
  • Machine-Learning classification analysis

P Preprocessing

Mass-Up includes the following preprocessing tasks:

  • Baseline correction
  • Normalization
  • Smoothing
  • Peak detection
  • Peak matching

OS Fueled by the open-source community

Mass-Up uses the state-of-the art libraries, including: jmzReader, MALDIquant, MassSpecWavelet, jzy3d, Weka, Java TreeView, BiMS (Biclustering for Mass Spectrometry), The Apache Commons Mathematics Library, and the AIBench Framework.

gpl3 Mass-Up is open source with license GPLv3

Citing Mass-Up

If you use Mass-Up, please, cite this article:

H. López-Fdez; H.M. Santos; J.L. Capelo; F. Fdez-Riverola; D. Glez-Peña; M. Reboiro-Jato (2015) Mass-Up: an all-in-one open software application for MALDI-TOF mass spectrometry knowledge discovery. BMC Bioinformatics. 16:318. ISSN: 1471-2105