Center for Biological Sequence Analysis
13 positions in bioinformatics/systems biology at the Center for
Biological Sequence Analysis, DTU
The Center for Biological Sequence Analysis at the Technical University of Denmark
was formed in 1993, and conducts basic research in the fields of bioinformatics and
systems biology. The center is divided into ten specialist research groups, has a highly
multi-disciplinary profile (biologists, biochemists, MDs, physicists, statisticians, and
computer scientists) with a ratio of 2:1 of bio-to-nonbio backgrounds. CBS represents
one of the large bioinformatics groups in academia in Europe.
The successful candidates will be working within one of the following areas:
Metagenomics group
3 PhD/postdocs in next gen sequencing related metagenomics
The Metagenomics group is seeking highly motivated candidates for three
PhD/postdoctoral positions. The project will have a special focus on implementing a
new gene discovery pipe line for high-throughput sequencing data, bacterial assembly
and next generation sequence analysis tools in a distributed computing environment.
- Candidates applying for a PhD scholarship should hold a master’s degree in
bioinformatics, biology, biochemistry, engineering, computer science or
similar.
- Postdoc candidates should hold a PhD degree in bioinformatics, biology,
microbial ecology, engineering, computer science or similar.
- The candidate must have strong computational skills and prior experience with
Unix/Linux command line environments, SQL, as well as either Perl, Python,
Ruby or a comparable scripting language.
- The applicant must have prior experience with next generation sequencing data
analysis and gene discovery.
- Knowledge of genome assembly and large-scale data mining is considered a
plus.
- Knowledge of taxonomic classification and/or super trees is considered a plus.
- The applicant must be a good communicator and strong in written as well as
spoken English.
Contact: Associate professor, group leader Thomas Sicheritz-Pontén, tel.: +45 4525
2422 or +46 706572471
1 postdoc position in archaeal genetics
The successful candidate will be based at the University of Helsinki, part of the work
will be carried out at the Technical University of Denmark. The project will focus on
the analysis of fungus associated archaea in boreal forest soils by next generation
sequencing as well as stable isotope metabolic experiments.
- Candidates applying for the postdoctoral position should have a PhD degree in
the field of microbial ecology or genetics.
- The applicant should have a strong publication record and the ability to work
independently.
- Experience in next generation sequence analysis, gene annotation and stable
isotope techniques is an advantage.
Contact: Associate professor, group leader Thomas Sicheritz-Pontén, tel.: +45 4525
2422 or +46 706572471
Immunological bioinformatics group
The Immunological bioinformatics group is seeking highly motivated candidates for a
postdoc position as well as a scientific programmer position. The group is involved in
establishing a new center for global molecular epidemiology focusing on the
pathogenicity and systems biology of bacteria.
1 postdoc within predictive bioinformatics for molecular epidemiology
- The candidate will work on the development of pathogenicity prediction tools
for a wide range of bacteria.
- The candidate will help coordinate the project which involves partners at DTU
Food as well as collaborators in the US.
1 scientific programmer for molecular epidemiology
- The work involves programming novel genome typing applications.
- The candidate will work closely together with other scientific staff members
from IT, epidemiology and immunological bioinformatics.
Contact: Professor, group leader Ole Lund, tel.: +45 4525 2425
1 PhD within epitope prediction
- Development of tools for epitope prediction including tools with pan-specific
MHC allelic coverage, and structural B cell epitope identification.
Contact: Associate professor Morten Nielsen, tel.: +45 4525 2425
Functional human variation group
A PhD position is available in collaboration with the COPSAC group at the
Copenhagen University Hospital, to study gene-environment interactions leading to
childhood asthma. There is a strong emphasis on data integration incorporating
genome wide association studies, protein-protein interactions, disease functional
networks and patient text mining.
1 PhD within childhood asthma systems biology
- Candidates are expected to have prior computational or human genetics
background, preferably both.
- The ideal PhD candidates should hold an MD, a Master of Science degree, or
the equivalent in bioinformatics, computer science, genetics or cellular biology.
- For well experienced candidates with a strong PhD, a postdoc position may be
considered.
Contact: Associate professor, group leader Ramneek Gupta, tel.: +45 4525 2422
Integrative systems biology group
We seek PhD/postdoc candidates for projects within disease systems biology with
focus on overlapping pathways and shared genes between diseases. The projects
typically involve data integration of highly diverse data types, from the molecular
level to phenotypic data from electronic patient records and biobank questionnaires.
1 PhD within disease systems biology
- The ideal PhD candidates should hold an MD, a Master of Science degree, or
the equivalent in bioinformatics, computer science, or cellular biology.
- Experience with biological data analysis or text mining would be favorable
along with good analytical skills.
1 postdoc within disease systems biology
- The ideal postdoc should have a PhD degree in the field of bioinformatics,
computer science, or cellular biology.
- Experience with biological data analysis or text mining would be favorable
along with good analytical skills.
1 scientific programmer within disease systems biology
- The ideal scientific programmer should have sound object-oriented language
knowledge.
- Preferably with JAVA or C++, experience with Perl, SQL, UNIX, php, html,
and experience from other biological computing projects.
Contact: Professor, center director and group leader Søren Brunak, tel.: +45 4525
2477
Regulatory genomics group
The Regulatory genomics group is seeking highly motivated candidates for a PhD or
postdoc position (3 years). The research project would focus on topics related to the
informatics of non-coding RNA genes as part of the newly established center for noncoding RNA in technology and health which includes a collaboration with the
University of Copenhagen.
1 PhD/postdoc in non-coding RNA genomics
- PhD candidates must have a Masters degree in bioinformatics, molecular
biology or related fields. Postdoctoral candidates must have a PhD in one of
these areas.
- Computational skills, data analysis, applied statistics, and a fundamental
understanding of biology OR molecular biology skills related to RNA
-
isolation, DNA microarray or high-throughput sequencing along with basic
informatics skills.
Ideal candidates will have analysis experience with high-throughput
sequencing data and analysis of miRNA or siRNA data.
Contact: Associate professor, group leader Christopher Workman, tel.: +45 4525
6148
DTU multi-assay core facility
We seek a data analyst or bioinformatician with experience with data from
microarrays, next generation sequencing, flow-cytometry or cellular assays.
1 postdoc or research assistant, bioinformatics generalist
It is essential that the applicant has data analysis and statistics experience,
computational skills and a fundamental understanding of biology.
Experience with scripting languages, bioinformatics packages
(Python/biopython, R/bioconductor, or others) is required, and knowledge of
compiled languages (C, C++, Java) or web development is considered a plus.
Contact: Senior researcher, head of core facility Laurent Gautier, tel.: +45 4525 6145
General information for PhD positions:
Approval and enrolment
The scholarships for the PhD degree are subject to academic approval, and the
candidates will be enrolled in one of the general degree programmes of DTU. For
information about the general requirements for enrolment and the general planning of
the scholarship studies, please see the DTU PhD Guide.
Salary and appointment terms
The salary and appointment terms are consistent with the current rules for PhD degree
students. A PhD study in Denmark is three years in duration.
For postdoc and scientific programmer positions:
Salary and terms of employment
The appointment will be based on the collective agreement with the Confederation of
Professional Associations. The allowance will be agreed with the relevant union.
Further information:
Further information may be obtained from center administrator Dorthe Kjærsgaard,
tel.: +45 4525 2480.
Application
We must have your online application by 1 March 2010. Please open the link "apply
for this job online" and fill in the application form and attach your application and CV
including reference contacts.
All interested candidates irrespective of age, gender, race, religion or ethnic
background are requested to apply.