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Computational proteomics


In this workshop we will explore novel computational approaches to processing mass-spec proteomics data with a focus on data-independent analysis.

Topics include:

  • Broad overview of mass-spec proteomics approaches
  • Introduction to data-independent proteomics approaches
  • Building a spectral library from data-dependent analysis data
  • Searching data-independent analysis data with the spectral library using the OpenSWATH workflow
  • Visualization of results

Number of participants


Entry requirements

  • Attendance to the seminar “Mass spectrometry proteomics approaches on a novel mass spectrometer within StemTherapy” on September 18, 2019 at 15.00 - 16.00 at Segerfalksalen. Speaker: Jenny Hansson, Associate senior lecturer, Division of Molecular Hematology, Lund Stem Cell Center
  • Participants are expected to use their own computers.
  • Working RStudio or Jupyterhub installation on their own computer
  • LUNARC Account (Aurora cluster)
  • Basic knowledge of Linux and R
  • Basic knowledge of SLURM cluster commands to run jobs on Aurora (LUNARC)

This workshop is organised by the Research School in Stem Cell Biology in collaboration with the StemTherapy Bioinformatics Core Facility. Please be aware that the number of participants is limited. Participation in the workshop is free of charge for members of the Research School in Stem Cell Biology.


Page Manager:


November 7, 2019 at 13.00 - 17.00

Venue: BMC I1309


Paul Theodor Pyl
Breast Cancer Proteogenomics, Oncology and Pathology, Lund University

Email: Paul [dot] Pyl [at] med [dot] lu [dot] se

Jenny Hansson
Proteomic Hematology, Division of Molecular Hematology, Lund Stem Cell Center, Lund University

Email: jenny [dot] hansson [at] med [dot] lu [dot] se


Applications will open mid August 2019 and will run until September 20, 2019.

Applicants will be informed of the outcome of their application via email within one week after the application deadline.

Apply here (link to other website)