Training material for proteomics workflows in Galaxy
Before diving into this topic, we recommend you to have a look at:
For these tutorials, you can use the dedicated Docker image:
docker run -d -p 8080:80 quay.io/galaxy/proteomics-training
It will launch a flavored Galaxy instance available on http://localhost:8080.
This material is maintained by:
- Florian Christoph Sigloch (email@example.com)
- Björn Grüning (firstname.lastname@example.org)
- Clemens Blank (email@example.com)
For any question related to this topic and the content, you can contact them.
This material was contributed to by:
- Florian Christoph Sigloch
- Björn Grüning
- Timothy J. Griffin
- Pratik Jagtap
- James Johnson
- Clemens Blank
- Kumar D, Yadav AK and Dash D: Choosing an Optimal Database for Protein Identification from Tandem Mass Spectrometry Data.
Vaudel M, et al.: Shedding light on black boxes in protein identification.
An extensive tutorial for peptide and protein identification, available at http://compomics.com/bioinformatics-for-proteomics. The material is completely based on freely available and open-source tools.
Cappadona S, et al.: Current challenges in software solutions for mass spectrometry-based quantitative proteomics
A comprehensive review of current quantitative techniques, their advantages and pitfalls.
Tholen S, et al.: Limited and Degradative Proteolysis in the Context of Posttranslational Regulatory Networks: Current Technical and Conceptional Advances
Review on LC-MS/MS based proteomic methods to identify neo-N-termini, e.g. generated by protease cleavage.