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Bioinformatics tools from our lab

Name

Description

Publication

PolySTest

Robust statistical testing of quantitative proteomics data.

Schwämmle et al., 2020

HUMOS

eLearning web-application aimed to help teaching Orbitrap mass spectrometry

Bubis et al., 2020

ComplexBrowser

R based software for supervised analysis of changes in protein complex abundance and subunit co-expression in proteomic datasets

Michalak et al., 2019

CoExpresso

Tool to investigate the co-regulatory behavior and its significance of protein subunits in known protein complexes

Chalabi et al., 2019

ProtProtocols and IsoProt

Containerized workflows for proteomics data analysis

Griss et al., 2019

Citrullia

Confident identification of citrullinated peptide

Larsen et al., 2020

topdownR

Automatic and systemic investigation of MS/MS fragmentation methods on an orbitrap instrument platform and systematic analysis of the resultant spectra.

Shliaha et al., 2018

VSClust

Feature-based variance-sensitive clustering of omics data.

Schwämmle et al., 2018


SuperQuant

Quantitative proteomics data processing approach that uses complementary fragment ions to identify multiple coisolated peptides in tandem mass spectra allowing for their quantification.

Gorshkov et al., 2015

A2b2-restrictor

Deconvolution of multiple fragmented peptides using the relation between a2/b2 and the yn-2 ions found in HCD spectra.

Kryuchkov et al., 2014

CrossTalkDB

Platform to collect, statistically assess and analyze multiply modified proteins and provide a quantitative estimation of PTM crosstalk

Schwämmle et al., 2014

PhosphoSiteLocalizer

An approach for phospho-site localization by the combined use of peptide fragmentation with both CID and ETD.

Hansen et al., 2012

MASSAI

A software tool for the analysis of data from chemical cross-linking experiments.

Rasmussen et al., 2011

GPMAW

Software tool for analyzing proteins and peptides

 

GitHub projects

Source code and documentation of current and former software developments

Bitbucket projects

Source code and documentation of current and former software developments


 

Last Updated 06.11.2020