[SocBiN] PhD position in ITN network (short deadline)

[Arne Elofsson]

Dear colleagues

If you have some excellent students looking for PhD positions and fulfills
the rules (not lived more than 12 month in Sweden), please have them to
apply for the following position. It is a part of a very nice ITN network.


*Ref No SU FV-2476-1*
*Deadline Sept 15 2016*
http://www.su.se/english/about/vacancies/vacancies-new-list




*Project title: Prediction and studies of membrane protein
interactions *(Please
note that thet project title and description on the application page is
different,  but this is a sudden opening)


Project leader: Arne Elofsson, arne at bioinfo.se, Homepage: http://bioinfo.se/


Membrane proteins are the gateways to the cells and as such they are of
great importance for the development of drugs. In addition membrane
proteins are quite difficult to handle experimentally, therefore prediction
methods are important to gain information about these protein.  We have
developed many of the leading methods for prediction of membrane protein
structures. For a full list of publication see http://bioinfo.se/papers/ .

The primarily aim of this project is to obtain detailed structural
information about large biological complexes and networks, such as membrane
protein translocases, by integrating different types of genomic sequence
data. The information from a sufficient number of homologous sequences is
often sufficient to predict the fold of soluble globular proteins or
membrane proteins.

Two types of information will primarily be used. First, the identification
of co-evolving residues can be used to predict interacting residue pairs.
Secondly the use of structural homology combined with analysis of
interaction surfaces can be used to identify potentially interacting
proteins. These purely computational methods will then, if needed, be
combined with experimental data from Cryo-EM and other techniques.

A general interest in protein, programming and machine learning methods and
a solid background in bioinformatics, physics or computer science is
suitable for this position.

This position is a part of a European Union Marie Skłodowska Curie Initial
Training Network named “protein factory”.  The overall aim of this network
is to develop new protein production systems that can deliver secreted
enzymes and membrane proteins in greater yields, with higher quality and at
lower costs. The network consists of 11 partners from 7 different European
countries and in total 15 PhD students will be recruited. All these
students will participate in several workshops, meetings and courses.  This
provides a unique possibility to form a network of fewllow scientists with
a common research interest.

The position is funded by a European Union Marie Skłodowska Curie Initial
Training Network. Therefore, *potential candidates must not have resided or
carried out their main activity (work, studies, etc.) in Sweden for more
than 12 months in the 3 years immediately prior to the recruitment, and
have no more than 4 years of research experience. *

Include a short motivation, a CV (plus diplomas and certificates/date when
you expect to finish your studies), an example of computer code you have
written and the contact details of at least 2 references in your
application.

References:

1)      Bernsel, A., Viklund, H., Falk, J., Lindahl, E., von Heijne, G.
and  Elofsson, A. (2008) Prediction of membrane-protein topology from
first principles. Proc Natl Acad Sci U S A 105 (20) : 7177-718

2)      Bendz, M., Skwark, M., Nilsson, D., Granholm, V., Cristobal, S.,
Kall, L. and Elofsson, A. (2013) Membrane protein shaving with  thermolysin
can be used to evaluate topology predictors. Proteomics 13 (9) : 1467-1480.

3)      Peters, C. and Elofsson, A. (2014) Why is the biological
hydrophobicity scale more accurate than earlier experimental hydrophobicity
scales? Proteins 82 (9) : 2190-2198.

4)      Skwark, M.J., Raimondi, D., Michel, M. and Elofsson, A. (2014)
Improved contact predictions using the recognition of protein like contact
patterns. PLoS Comput Biol 10 (11) : e1003889.


*http://web103.reachmee.com/ext/I007/927/job?site=8&lang=UK&validator=d3e6a58db9058c5eab7ea3e324f063f6&ref=http%3A%2F%2Fwww.su.se%2Fenglish%2Fstaff-info%2Frelocation&ihelper=http%3A%2F%2Fwww.su.se%2Fenglish%2Fabout%2Fvacancies%2Fvacancies-new-list&job_id=1810
<http://web103.reachmee.com/ext/I007/927/job?site=8&lang=UK&validator=d3e6a58db9058c5eab7ea3e324f063f6&ref=http%3A%2F%2Fwww.su.se%2Fenglish%2Fstaff-info%2Frelocation&ihelper=http%3A%2F%2Fwww.su.se%2Fenglish%2Fabout%2Fvacancies%2Fvacancies-new-list&job_id=1810>*
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.su.se/pipermail/socbin-at-sbc.su.se/attachments/20160907/df732268/attachment.html>