SNP Detection and NGS

Block seminar/proseminar covering SNP (Single Nucleotide Polymorphism) related topics including extracting SNPs from NGS (Next Generation Sequencing) data and using that information for prediction tasks (e.g. pathogenicity, treatment response).

Tutors: Valentina Galata, Sabine Müller


  • From 21st to 28th October, we will ignore any emails before or after that time period
  • Plase send the email to the tutors
  • Students without any proseminar/seminar certificate will be preferred
  • For the registration we need the following information:
    • Your name and matriculation number
    • Whether your are a Bachelor or a Master student and in which semester
    • The topic you prefer and whether you want to do a seminar or a proseminar
    • Whether you already have a seminar/proseminar certificate


  • Proseminar: at least in 3rd semester, Bioinformatics I
  • Recommended, but not required: NGS lectures, Statistical Learning

Requirements for certificate:

  • Submitting the first version of the slides
  • Successful presentation: 30 minutes (proseminar), 40 minutes (seminar) + questions
  • Submitting a summary (2 pages)
  • Attendance to all presentations

Topics: One topic per student, a topic may contain more than one paper

From of presentation Topic Participant Tutor
Seminar SNP calling from NGS data paper 1, paper 2 Michael W. Valentina
Seminar Pathogenicity Prediction of non-synonymous nucleotide variants (nsSNVs) paper 1, paper 2 Michael Z. Sabine
Proseminar/Seminar Inferring causative variants in microRNA target sites Hema S. R. R Valentina
Proseminar Genetic variants improve breast cancer risk prediction on mammograms Anke W. Valentina
Proseminar Integrative Pathway Analysis Using Graph-Based Learning with Applications to TCGA Colon and Ovarian Data Nader A. Valentina


  • Registration: 21-28.10.2014
  • First version of the slides: Deadline 26.02.2015 (4 weeks before the presentation)
  • Presentations: 26.03.2015
  • Summary: Deadline 03.04.2015

Place and Time: E2.1, room 106; on 26.03.2015, we start at 9:00 a.m.

Some presentation guidelines