Pro-/Seminar Microbial Community Research Summer Term 2016

Computational Approaches in Microbial Community Research

This is a block (pro)seminar covering topics related to microbial community research.

Tutor: Cedric Laczny

Dates:

  • Registration: From April 25th to April 29th, 2016 HERE
    • 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
    • You will receive an email after the end of the registration period
  • Deadline: 1st version of the slides: August 4th, 2016
  • Presentations: September 1st, 2016
  • Deadline: Summary: 1 week after presentations

Place and Time: E2.1, room 206, 8:30 a.m. sharp

Requirements for participation:

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

Certificate requirements:

  • Submitting the first version of the slides (see presentation guidelines, slide guidelines)
  • Successful presentation:
    • Talk: 30 minutes (proseminar); 40 minutes (seminar)
    • Questions from the audience after the presentation
  • Attendance to all presentations
  • Submitting a summary (ca. 2 pages)

Topics: The presentation should cover all papers (seminar) or only the first paper (proseminar) assigned to a topic.

Nr. Presentation Topic Participant
1 Proseminar 1) Kraken: ultrafast metagenomic sequence classification using exact alignments Carsten K.
2 Seminar 1) Fast and sensitive protein alignment using DIAMOND Ilkay U.
3 Proseminar 1) IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth; 2) MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph Nadja G.
4 Seminar 1) Detection of low-abundance bacterial strains in metagenomic datasets by eigengenome partitioning Saheli D.
5 Proseminar 1) PANNZER: high-throughput functional annotation of uncharacterized proteins in an error-prone environment Treesa S.
6 Proseminar 1) Metagenomic biomarker discovery and explanation Itrat R.
7 Seminar 1) Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes Andrea K.
8 Proseminar 1) MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities Samira G.