Bioinformatics algorithms and analyses
- Clemens Blank, Patrick Wright
- Initial compulsory meeting on 25. April 2017, 14:00 c.t., room 02 006,
- Block seminar: Tuesday 04. July 2017, 10am - 6pm, room 02
006, building 106
- Hand in presentation (slides and summary) draft by: Tuesday 27. June 2017, earlier submission is encouraged
- Please let us know if you decide not to do the seminar as EARLY AS POSSIBLE!
- Comparative genomics boosts target prediction for bacterial small RNAs
Given to: Alexander Mitrofanov
- Global RNA recognition patterns of post-transcriptional regulators Hfq and CsrA revealed by UV crosslinking in vivo
- PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes
Given to: Subhadhra Sudharsan
- Identifying biological themes within lists of genes with EASE
- Seed-based INTARNA prediction combined with GFP-reporter system identifies mRNA targets of the small RNA Yfr1
- An experimentally anchored map of transcriptional start sites in the model cyanobacterium Synechocystis sp. PCC6803
Given to: Simon Päusch
- Biocomputational prediction of non-coding RNAs in model cyanobacteria
Given to: Janani Rajendraprasad
- Differential RNA-seq (dRNA-seq) for annotation of transcriptional start sites and small RNAs in Helicobacter pylori
- Protein Inference Using Peptide Quantification Patterns
Given to: Julia Leinmüller
- Driving the Model to Its Limit: Profile Likelihood Based Model Reduction
- Mass-spectrometry-based draft of the human proteome
Given to: Jan Bechtold
- STAR: ultrafast universal RNA-seq aligner
Given to: Matteo Cossu
- Near-optimal probabilistic RNA-seq quantification
- De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis
- Small proteins in cyanobacteria provide a paradigm for the functional analysis of the
- The seminar will be held in English.
- Hand in presentation a week before seminar begins.
- Active participation for all talks.
- Give 25 min presentation. (+ ~5-10 min discussion after)
- One page summary (no copy paste).
- Order of talks is based on order of submission.
- Previous participation in at least one bioinformatics lecture
- Basic knowledge of algorithms, molecular biology and interest in
biologically relevant problems