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<strong style="box-sizing: border-box;"><font face="Arial" style="font-size: 14px;">Dear all, </font></strong></p>
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<div>we are currently recruiting a post-doc (or equivalent) computational biologist to our team to help us to analyse the immune system in more detail. </div>
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<div>Please find a link below and a broad description of the lab, project and responsibilities. All application should proceed through the Karolinska Institute portal. </div>
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<div>Kind regards, Jonathan </div>
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<strong style="box-sizing: border-box;"><a href="https://ki.mynetworkglobal.com/en/what:job/jobID:88719/where:4/" style="font-weight: normal; line-height: normal; widows: auto;">https://ki.mynetworkglobal.com/en/what:job/jobID:88719/where:4/</a></strong></p>
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<strong style="box-sizing: border-box;"><font face="Arial" style="font-size: 14px;">Research group</font></strong></p>
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<font face="Arial" style="font-size: 14px;">Jonathan’s team is interested in lineage commitment and in particular in subset specification of a population of immune cells called T helper cells. T helper cells are central mediators of a range of inflammatory
disorders including asthma, multiple sclerosis and inflammatory bowel disease and are known to acquire specialized functions.</font></p>
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<font face="Arial" style="font-size: 14px;">The team is interested in 2 aspects of their differentiation; 1) What functions do these cells acquire in different inflammatory diseases and can these functions be extrapolated using unbiased techniques? 2) Identifying
novel factors and gene networks that may regulate the acquisition of functions over time, and to test their functions in physiological models of disease.</font></p>
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<font face="Arial" style="font-size: 14px;">To tackle these questions, Jonathan’s team is using Single Cell RNA-Sequencing among other array and sequencing based approaches to analyse T helper cells in diseased tissues. The lab’s goal is to more accurately
define T helper cell functions in disease states and find novel regulators that may be the target of future therapies. </font></p>
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<div><font face="Arial" style="font-size: 14px;">The Karlsson Hedestam group studies B cell biology, with a focus on understanding the development of antigen-specific B cells in memory compartments. This is studied through the isolation of monoclonal antibodies
and next generation sequencing (NGS) analysis of antibody repertoires for longitudinal lineage tracing. The candidate will provide computational support for a recently established pipeline for NGS antibody analysis techniques and other programs being developed
by the group. These bioinformatics tools for antibody repertoire analysis can be used for a wide range of pre-clinical and clinical applications, related to infections, cancer and autoimmunity. </font></div>
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<b style="box-sizing: border-box;"><font face="Arial" style="font-size: 14px;">Area of responsibilities/work description<em style="box-sizing: border-box;"> <br style="box-sizing: border-box;">
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<font face="Arial" style="font-size: 14px;">The successful applicant will work with a team of biologists to apply existing, or to develop novel, statistical and computational bioinformatics methods for analysis of various -omics data, with particular focus
on NGS technologies, including RNA-Seq, and single-cell RNA-Seq. An interest in the application of machine learning approaches is also desirable.</font></p>
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<font face="Arial" style="font-size: 14px;">The duties also include: </font></p>
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<li style="box-sizing: border-box;"><font face="Arial" style="font-size: 14px;">Consulting researchers on the NGS experimental design</font></li><li style="box-sizing: border-box;"><font face="Arial" style="font-size: 14px;">Data QC, data management and archival storage</font></li><li style="box-sizing: border-box;"><font face="Arial" style="font-size: 14px;">Analysis of large datasets, preparation of codes, development of new methods/tools for advanced analysis of datasets</font></li><li style="box-sizing: border-box;"><font face="Arial" style="font-size: 14px;">Support the ongoing research in the group, help write papers, grants and scientific meeting presentations</font></li><li style="box-sizing: border-box;"><font face="Arial" style="font-size: 14px;">Shape, develop and maintain the current computing resources of the group</font></li></ul>
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<font face="Arial" style="font-size: 14px;"><b style="box-sizing: border-box;">Qualifications</b><b style="box-sizing: border-box;"></b></font></p>
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<font face="Arial" style="font-size: 14px;">The successful candidate has a solid background in bioinformatics, statistics and computational biology, good expertise in statistical and bioinformatics software, and an ability to work in a multidisciplinary research
environment. The individual should be highly driven and be able to work independently, while being able to communicate effectively with other members of the team.</font></p>
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<font face="Arial" style="font-size: 14px;">Preferably, the candidate should hold a PhD degree (or complete one within the next months) or have a track record of performing independent research over the past 4 years. Proven track record of publishing research
results in high-ranked journals is appreciated. Experience with Python, R, Matlab or other software/programming languages
<span style="box-sizing: border-box;">is required.</span></font></p>
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<div>Jonathan Coquet<br>
Dept. of Microbiology, Tumor and Cell Biology (MTC), Karolinska Institutet<br>
Nobels väg 16<br>
Stockholm 171 77, SWEDEN<br>
+46 8 524 86952</div>
<div><a href="http://ki.se/en/mtc/jonathan-coquet-project">http://ki.se/en/mtc/jonathan-coquet-project</a></div>
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