<div dir="ltr"><div><br></div><div>Dear colleagues</div><div><span style="color:rgb(0,0,0);font-family:georgia,"times new roman",times,serif;font-size:12px"><br></span></div><div><span style="color:rgb(0,0,0);font-family:georgia,"times new roman",times,serif;font-size:12px">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. </span></div><div><span style="color:rgb(0,0,0);font-family:georgia,"times new roman",times,serif;font-size:12px"><br></span></div><div><b><span style="color:rgb(0,0,0);font-family:georgia,"times new roman",times,serif;font-size:12px">Ref No SU FV-2476-1</span><br></b></div><div><b>Deadline Sept 15 2016</b></div><div><a href="http://www.su.se/english/about/vacancies/vacancies-new-list">http://www.su.se/english/about/vacancies/vacancies-new-list</a><br></div><div><br></div><div><br></div><div><br></div><div>
<p class="MsoNormal"><b>Project title: Prediction and studies of
membrane protein interactions<br>
</b>(Please note that thet project title and description on the application page is different, but this is a sudden opening)</p><p class="MsoNormal"><br></p><p class="MsoNormal">Project leader: Arne Elofsson,
<a href="mailto:arne@bioinfo.se">arne@bioinfo.se</a>, Homepage: <a href="http://bioinfo.se/">http://bioinfo.se/</a><span></span></p>
<p class="MsoNormal" style="text-indent:13.5pt"><br></p><p class="MsoNormal" style="text-indent:13.5pt">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 <span lang="SV"><a href="http://bioinfo.se/papers/"><span lang="EN-US">http://bioinfo.se/papers/</span></a></span> .<span></span></p>
<p class="MsoNormal" style="text-indent:13.5pt">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.<span></span></p>
<p class="MsoNormal" style="text-indent:13.5pt">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.<span></span></p>
<p class="MsoNormal" style="text-indent:13.5pt">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. <span></span></p>
<p class="MsoNormal">This position is a part of a European Union <span lang="EN-GB">Marie </span><span lang="FR-BE">Skłodowska</span><span lang="EN-GB"> Curie
Initial Training Network named “protein factory”. The overall aim of this network is to develop
new protein production systems that can deliver </span>secreted enzymes and membrane proteins<span lang="EN-GB"> 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.<span></span></span></p>
<p class="MsoNormal">The position is funded by a European Union <span lang="EN-GB">Marie </span><span lang="FR-BE">Skłodowska</span><span lang="EN-GB"> Curie
Initial Training Network. </span>Therefore,
<b>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. </b><span></span></p>
<p class="MsoNormal" style="text-indent:13.5pt">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.<span></span></p>
<p class="MsoNormal" style="text-indent:13.5pt"><span lang="SV">References: <span></span></span></p>
<p class="gmail-MsoNormalCxSpMiddle" style="margin:0in 0in 0.0001pt;text-indent:13.5pt"><span lang="SV">1)<span style="font-variant-numeric:normal;font-stretch:normal;font-size:7pt;font-family:"times new roman"">
</span></span><span lang="SV">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<span></span></span></p>
<p class="gmail-MsoNormalCxSpMiddle" style="margin:0in 0in 0.0001pt;text-indent:13.5pt"><span lang="SV">2)<span style="font-variant-numeric:normal;font-stretch:normal;font-size:7pt;font-family:"times new roman"">
</span></span><span lang="SV">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.<span></span></span></p>
<p class="gmail-MsoNormalCxSpMiddle" style="margin:0in 0in 0.0001pt;text-indent:13.5pt"><span lang="SV">3)<span style="font-variant-numeric:normal;font-stretch:normal;font-size:7pt;font-family:"times new roman"">
</span></span><span lang="SV">Peters, C. and Elofsson, A. (2014)
Why is the biological hydrophobicity scale
more accurate than earlier experimental hydrophobicity scales? Proteins 82 (9)
: 2190-2198.<span></span></span></p>
<p class="gmail-MsoNormalCxSpMiddle" style="margin:0in 0in 0.0001pt;text-indent:13.5pt"><span lang="SV">4)<span style="font-variant-numeric:normal;font-stretch:normal;font-size:7pt;font-family:"times new roman"">
</span></span><span lang="SV">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.<span></span></span></p>
</div><div><br></div><div><br></div><div><font color="#000000" face="Georgia, Times New Roman, Times, serif"><span style="font-size:12px"><b><a href="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</a></b></span></font><br></div><div><font color="#000000" face="Georgia, Times New Roman, Times, serif"><span style="font-size:12px"><b><br></b></span></font></div><div><font color="#000000" face="Georgia, Times New Roman, Times, serif"><span style="font-size:12px"><b><br></b></span></font></div><div><font color="#000000" face="Georgia, Times New Roman, Times, serif"><span style="font-size:12px"><b><br></b></span></font></div></div>