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#Researcher, CS/Knowledge management in bioinformatics, Humboldt-Universität zu #Berlin

The research group for „Knowledge Management in Bioinformatics“ at the
Institute for Computer Science, Humboldt-Universität zu Berlin, has an
open position in the area of semantic integration of very large
biomedical data sets to develop a new generation of information
systems for precision oncology. The position is available from 1st
November 2016 until February 2019. Payment is according to German
regulations TV-L 13.

The Project
The position is part of a cooperation of the chair (Ulf Leser) with
the Charité Universitätsmedizin Berlin (Systems Biology, Oncology,
Pathology), Humboldt-Universität (Machine Learning, Text Mining, Data
Integration, Workflows), and Universität Tübingen (Bioinformatics,
omics-Analysis) within the i:DSem program on semantic integration of

biomedical data sets funded by the German Ministry of Education and
Research (BMBF). Within these co-operations, our group develops a new
generation of semantically integrated databases for translational
cancer research. Our system will build on recent Big Data workflow
technologies to integrate using a multitude of very large data sets,
including text mining results, mutation databases, internal and
external -omics high-throughput sets, ontologies, and clinical data.

The position
The successful applicant will be responsible for designing, building,
and maintaining the central information system of within the project.
This includes design and implementation of scalable data integration
workflows, selection of data sources in close cooperation with the
clinicians engaged on the project, development of an integrated data
model, and definition of suitable data access interfaces for a number
of clinical applications.
The position is especially adequate for PostDocs, PhD students or
engineers which want to learn about, apply and further develop
workflow technologies for scalable data integration in the exciting

field of current, genome-based precision oncology.

The Environment
The holder of this position will work in an interdisciplinary group
with researchers from computer science, medicine, and bioinformatics
currently consisting of 14 full-time researchers plus students. He/she
will benefit from contact with a number of other projects in the group
related to statistical analysis of omics data, scientific workflows,
and eScience infrastructures. Among other projects, the group is part
of the DFG-funded research unit Stratosphere (cloud-based information
analysis), the graduate school SOAMED (service-oriented architectures
for medical applications), and the DFG Excellence Graduate school BSIO
(Berlin School of Integrative Oncology).

For more information, please visit

Humboldt-Universität is an equal-opportunity employer. Applications
from disabled persons are, if equally qualified, handled with
preference. We strongly encourage applications by females.
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