Pro-/Seminar Bioinformatic Tools in Bacterial Research

This is a block pro-/seminar.

Tutor: Valentina Galata

Dates:

Registration From October 25th to November 1st, 2016 HERE
Kick-off meeting January 18th, 2017 In E2.1, room 206, at 15:00 s.t
De-registration deadline Februar 1st, 2017
Deadline for the 1st version of slides February 14th, 2017
Presentations March 14th, 2017 In E2.1, room 206, at 09:00 s.t.
Summary submission deadline March 21st, 2017

Registration:

  • If you already are in our database (e.g. you registered for other lectures/seminars) then you should provide the same personal information, otherwise the registration will not work
  • Write an email to the tutor if you encounter any problems during the registration process
  • You will receive an email after the end of the registration period

Requirements for participation:

  • Proseminar: at least in 3rd semester, Bioinformatics I

Certificate requirements:

  • Submitting the first version of the slides (see presentation guidelines and presentation guidelines checklist)
  • Successful presentation:
    • Talk:
      • Pro-seminar: 30 minutes
      • Seminar: 40 minutes
    • Questions from the audience after the presentation
  • Attendance to all presentations
  • Submitting a summary (ca. 2 pages)

Topics: The presentation should cover all papers assigned to a topic.

Nr. Presentation Topic Participant
1 Proseminar Real-time DNA sequencing from single polymerase molecules;Mind the gap: upgrading genomes with Pacific Biosciences RS long-read sequencing technology Solveig A.
2 Seminar Improved data analysis for the MinION nanopore sequencer;MinION nanopore sequencing identifies the position and structure of a bacterial antibiotic resistance island Jingyu Y.
3 Proseminar CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers;Higher classification sensitivity of short metagenomic reads with CLARK- S Friederike G.
4 Seminar SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing Nadia A.
5 Seminar Prokka: rapid prokaryotic genome annotation;BEACON: automated tool for Bacterial GEnome Annotation ComparisON Esha C.
6 Seminar Roary: Rapid large-scale prokaryote pan genome analysis Natalie W.
7 Seminar RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models;RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies Sanjay K. S.