Integrative cancer bioinformatics: Postdoc position.
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About the position:
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Basic cancer research through the development of appropriate model systems
such as mice, rats and cell lines is a field of special interest within the
Netherlands Cancer Institute. Ultimately, the goal is to combine this
information with human tumor data in order to deliver personalised treatment
to patients.
Recent developments in high-throughput genomic technologies have made it
possible to significantly further this research by unraveling the role of
large numbers of genes in important cellular processes. These technologies
include, amongst other, high-throughput high content screening (HTHCS) and
insertional mutagenesis screens.
In HTHCS, a large RNAi library in combination with cell-based assays,
fluorescence-based reagents, automated fluorescence microscopy and image
analysis are employed to study complex cellular phenotypes. In HTHCS one can
study the consequence of inactivation of large numbers of individual genes,
in a collection of individual cells, measured by multiple cellular
parameters.
In retroviral insertional mutagenesis, retroviruses integrate in the genome
of (genetically manipulated) mice, causing tumors by either activating
oncogenes of de-activating tumor suppressors. By studying the genomic
distribution patterns of the viral integration sites and the gene expression
of associated tumors, valuable information about genes and pathways involved
in tumorigenesis can be obtained.
Each of these technologies generates large, heterogeneous, complex datasets.
Currently, many of these datasets are simply employed to extract an
interesting new hit (e.g. a putative new oncogene) from a screen. By
performing an integrative analysis of the data we want to work towards
developing a 'systems level' understanding of the pathways and processes
involved in tumorigenesis. The computational challenges that need to be
addressed include the development of: 1) integrative models for 'experiment
specific' data and 'experiment independent' data to identify pathways and
interactions between pathways relevant to tumor development; 2) approaches
to associate (perturbations to) the identified pathways to phenotypic
outcomes; 3) cross-species comparisons to translate findings from model
systems (cell lines and mouse models) to the human system, and integration
of the findings from model systems with data from human tumors to predict
outcome and therapy response.
About the candidate - requirements:
===========================
Ph.D in a relevant computational discipline such as Computer Science,
Statistics, Engineering, Applied Mathematics or Physics with experience in
Bioinformatics and/or Machine learning. Applicants that hold a Ph.D in the
life sciences, but with substantial experience in bioinformatics are also
encouraged to apply. The researcher appointed in this position will function
as a liaison between the Bioinformatics group and the research groups within
the Netherlands Cancer Institute performing the screens.
About the employer:
===============
The position is embedded within the Bioinformatics and statistics group lead
by Dr Lodewyk Wessels (http://bioinformatics.nki.nl). This group closely
collaborates with the groups of Drs Rene Bernards, Roderick Beijerbergen,
Anton Berns, Maarten van Lohuizen and Laura van 't Veer on the topics listed
above. The candidate will also be closely interacting with these groups on
the relevant topics. Research in the Netherlands Cancer Institute covers all
major areas of cancer research, with special emphasis on mouse models, mouse
(reverse) genetics, cell biology, immunology, translational research
requiring close collaboration between clinical and basic scientists and
epidemiology and psychosocial cancer research.
Employment conditions:
=================
The employment conditions follow general employment rules as laid down in
the 'CAO' for hospitals. The salary will be determined depending on
education and experience.
Want to find out more?
=================
For further information about the position please contact Dr. Lodewyk
Wessels, tel. +31 20 512 7987 or e-mail: l.wessels@nki.nl
How to apply:
==========
Applications for this position should include a Curriculum Vita with the
names and contact information of two professional references that can be
contacted for further information.
Send applications to:
The Personnel Department
The Netherlands Cancer Institute - Antoni van Leeuwenhoek Hospital
Plesmanlaan 121
1066 CX Amsterdam
The Netherlands, or via email to work@nki.nl.
L.F.A.Wessels, Ph.D
Bioinformatics and Statistics
The Netherlands Cancer Institute
Plesmanlaan 121, 1066 CX Amsterdam
The Netherlands
Tel: +31 (0)20 5127987
Fax: +31 (0)20 6691383
Mobile: +31 (0)634485714
Setia Pramana
Bioinformatics Research Group
Center for Statistics
Hasselt University
Agoralaan - building D
3590 Diepenbeek
Belgium
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