Bioinformatics
Institute of Computer Science
University Freiburg
de

Bioinformatics - Journal Club

Dates and locations of the joint Bioinformatics Journal Club of Uni Freiburg and MPI of Immunobiology and Epigenetics in 2012/13.

Date

Locations

Journal Club

Date Location Time Speaker Paper
18.10. MPI 10:30 Thomas Manke Thomas-Chollier et al. Transcription factor binding predictions using TRAP for the analysis of ChIP-seq data and regulatory SNPs. Nat Protoc, 2011.
Roider et al. Predicting transcription factor affinities to DNA from a biophysical model. Bioinformatics, 2007.
08.11. Uni 10:00 Fabrizio Costa Efficient graph tools for bioinformatics applications
15.11. MPI 10:00 Fidel Ramirez Li et al. IDR analysis 101 Measuring consistency between replicates in high-throughput experiments.
29.11. Uni 10:00 Daniel Maticzka Baltz et al. The mRNA-bound proteome and its global occupancy profile on protein- coding transcripts. Mol Cell, 2012.
Castello et al. Insights into RNA Biology from an atlas of mammalian mRNA-binding proteins. Cell, 2012.
10.01. MPI 10:00 Andreas Richter Shen et al. A map of the cis-regulatory sequences in the mouse genome. Nature, 2012.
24.01. Uni 10:00 Kousik Kundu Akiva et al. A dynamic view of domain-motif interactions. PLoS Comput Biol, 2012.
07.02. MPI 10:00 Maxim Barenboim Maurano et al. Systematic localization of common disease-associated variation in regulatory DNA. Science, 2012.
28.02. Uni 10:30 Steffen Heyne Tabach et al. Identification of small RNA pathway genes using patterns of phylogenetic conservation and divergence. Nature, 2013.
07.03. MPI 10:00 Barbara Hummel Sanyal et al. The long-range interaction landscape of gene promoters. Nature, 2012.
21.03. Uni 10:00 Sita Lange Khorshid et al. A biophysical miRNA-mRNA interaction model infers canonical and noncanonical targets. Nat Methods, 2013.
04.04. MPI 10:00 Friederike Mühlpfordt Birchler. Claims and counterclaims of X-chromosome compensation. Nat Struct Mol Biol, 2012.
18.04. Uni, Building 103, Room 01-014 10:00 Pavan Videm Fasold et al. DARIO: a ncRNA detection and analysis tool for next-generation sequencing experiments. NAR, 2011.
Langenberger et al. Identification and classification of small RNAs in transcriptome sequence data. PSB, 2010.
Erhard and Zimmer. Classification of ncRNAs using position and size information in deep sequencing data. Bioinformatics, 2010.
02.05. MPI 10:00 cancelled
16.05. Uni 10:00 Robert Kleinkauf Ditzler et al. High-throughput sequence analysis reveals structural diversity and improved potency among RNA inhibitors of HIV reverse transcriptase. NAR, 2013.
06.06. MPI 10:00 Sarah Diehl Grabherr et al. Full-length transcriptome assembly from RNA-Seq data without a reference genome (Trinity). Nat Biotech, 2011.
13.06. Uni 10:00 Christina Schmiedl Levin et al. A global sampling approach to designing and reengineering RNA secondary structures. NAR, 2012.
27.06. MPI 10:00 cancelled
11.07. Uni 10:00 Omar Alkhanbashi van der Oost. Molecular biology. New tool for genome surgery. Science, 2013.
Gaj et al. ZFN, TALEN, and CRISPR/Cas-based methods for genome engineering. Trends Biotechnol, 2013.
25.07. MPI 10:00 cancelled