Research

This page lists the current research topics of the group.
See also the Software page for publicly available Software.

Current Projects

Metatranscriptome Analysis
Daniela Beisser & Sven Rahmann,
in collaboration with the Biodiversity group (Jens Boenigk), Essen

Protein Hypernetworks
Bianca Stöcker, Johannes Köster & Sven Rahmann,
in collaboration with Eli Zamir (MPI Stuttgart)

Analysis of ddRAD sequencing data with error-tolerant hashing
Henning Timm & Sven Rahmann,
in collaboration with AG Aquatische Ökosystemforschung (Florian Leese), Essen

Exome analysis
Christopher Schröder, Felix Mölder, Christoph Stahl & Sven Rahmann,
in collaboration with the Institute of Human Genetics, Essen

Whole genome methylation analysis and epigenetic modifications
Christopher Schröder & Sven Rahmann,
in collaboration with the Institute of Human Genetics, Essen,
and with the DEEP consortium (German Epigenome Project)

Library complexity and duplication rate estimation
Christopher Schröder & Sven Rahmann

Osteosys: Osteoporose – eine Volkserkrankung im Kontext von kardiovaskulären Komplikationen und chronischer Inflammation: systemmedizinischer Ansatz zur personalisierten Therapie
Felix Mölder & Sven Rahmann


Past Projects

YeastScent
Elias Kuthe & Sven Rahmann,
in collaboration with Lars Blank, Christoph Halbfeld, Birgitta E. Ebert (RWTH Aachen), Sebastian Engell, Sven Wegerhoff (TU Dortmund), Jörg Ingo Baumbach, Ann-Kathrin Sippel (Reutlingen), Jessica Kuhlmann (B&S Analytik GmbH, Dortmund), Michael Quantz, Erik Pollmann (Versuchsanstalt der Hefeindustrie e.V., Berlin)

Dynatrait
Daniela Beisser & Sven Rahmann,
in collaboration with Jens Boenigk and Christina Bock (Biodiversity, Essen), Bernd Sures (Aquatic Ecology, Essen) and Matthijs Vos (Theoretical and Applied Biodiversity, Bochum)

SimLoRD – simulation of long read data
Bianca Stöcker, Johannes Köster & Sven Rahmann
This is our simulator for PacBio sequence reads with an appropriate error model.

q-unique DNA Sequences
Marianna D’Addario & Sven Rahmann

Analysis of ion mobility spectroscopy data with restricted resources
Dominik Kopczynski, Marianna D’Addario & Sven Rahmann,
in collaboration with Jörg Ingo Baumbach (Reutlingen) and B&S Analytik GmbH
(This was a project in the Collaborative Research Center SFB 876.)

Small RNA and miRNA analysis
Marcel Martin, Johannes Köster, Tobias Marschall, Sven Rahmann

Probabilistic Arithmetic Automata (PAAs) and Applications
Tobias Marschall & Sven Rahmann

DNA Motif discovery
Tobias Marschall & Sven Rahmann

Analysis of pattern matching algorithms
Tobias Marschall & Sven Rahmann

Subsequence Combinatorics
Sven Rahmann, with Cees Elzinga and Hui Wang

DNA Microarray Design and Layout
Sérgio A. de Carvalho Jr & Sven Rahmann