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PhD Position in Computational Biology for Genetic Disorders

Outstanding international students are invited to apply for a PhD scholarship in computational biology at Technical University of Munich. Applications should be sumbmitted as soon as possible.

You will develop computational methods and analyse multi-omics datasets (genome, transcriptome, proteome, metabolome) to unravel the genetic and molecular basis of genetic disorders. Your research topics include: Detection of aberrant molecular events in multi-omics dataset, generalizing our software OUTRIDER for RNA-seq to multiple omics data modalities [1]; development of genetic variant and gene prioritization algorithms by integrating multi-omics data together with deep learning models of regulatory variants, leveraging the model repository of machine learning models for genomics Kipoi (https://kipoi.org, [2]); Integration of multi-omics with wearable sensor data in the context of a new research network with Stanford (Lars Steinmetz lab). You will work directly on patient data, in tight collaboration with two close collaborators: Dr. Holger Prokisch, who is coordinating the European consortium for mitochondrial disorder GENOMIT (example collaboration [3]), and Prof. Christoph Klein, head of the Children's Hospital of the University of Munich (example collaboration [4]).

Applicants must hold a master in bioinformatics, or in physics, statistics, or applied mathematics with a genuine interest in applications to genomics. We expect know-how in machine learning or statistical modeling and demonstrated programming experience with R or python. (S)he should have excellent communications skills and be able to articulate clearly the scientific and technical needs, set clear goals and work within an interdisciplinary setting (biologists and geneticists).

The Gagneur lab is a lively, international, and interdisciplinary computational biology group with a research focus on the genetic basis of gene regulation and its implication in diseases. Our group is located in the informatics department of the Technical University of Munich, one of the top ranked European universities. Our lab has strong links to other local scientists and institutions in biology and medicine. Munich offers an outstanding, dynamic, interactive and internationally oriented research environment. Munich, the 2018 "most livable city in the world" according to the urban magazine Monocle, and the proximity of the Alps provide an excellent quality of life.

The position is funded from core funding with a salary according to the TV-L (German academic salary scale). We encourage joining the graduate school QBM (Quantitative Bioscience Munich). Applications including a cover letter, CV, and references must be sent to Julien Gagneur (gagneur@in.tum.de, cc: weise@in.tum.de) until Nov 30th 2018 referring to "PhD-rare18" in the title.

2. Avsec et al., Kipoi: accelerating the community exchange and reuse of predictive models for genomics, bioRxiv, 2018

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