From Carsten.Daub at ki.se Wed Apr 1 10:41:25 2015 From: Carsten.Daub at ki.se (Carsten Daub) Date: Wed, 1 Apr 2015 08:41:25 +0000 Subject: [SocBiN] A call for recruits and collaborations for a new Centre for Genome Translation in Sheffield, UK References: Message-ID: Postdoctoral, Programming and Graduate Student opportunities in Computational Systems Biology at Sheffield The Hide Lab https://hidelab.wordpress.com is recruiting programmers, postdoctoral fellows and graduate students to a set of new and well established projects that are part of our new Centre for Genome Translation. Please go the positions available at the website to learn more. The lab has relocated from Harvard School of Public Health to the Centre for Genome Translation at the Sheffield Institute for Translational Neuroscience (SITraN); a purpose built research facility which was opened in November 2010 by Her Majesty the Queen. The Institute houses computational, clinical and basic scientists with a focus on neurodegenerative disorders such as Motor Neurone Disease (MND), Alzheimer’s Disease and Parkinson’s disease. Successful candidates will be joining a global team working on best practice computational systems genetics approaches and discovery in genome translation - literally working with the best clinicians, machine learning experts, genome scientists, wet lab scientists and a global bioinformatics team to deliver new interventions against lethal neurodegenerative diseases in an environment where there is access to thousands of whole human genome sequences and associated phenotypes. We use systems approaches to integrate across genome-wide analyses of variation found within human genomes in meaningful new ways with quantitative functional and clinical phenotypes Postdocs: A PhD in an appropriate field. Strong programming skills; strong oral and written communication skills in English; Strong knowledge of biology. Track record of excellence in publications. Ability to develop creative powerful methods that solve complex integrative problems in computational systems biology. Strength in mathematics and biology. Ability to co-ordinate and take part in collaborations. Motivation to make meaningful translatable discoveries that will yield actionable results. You can build molecular networks from high-content genome-wide data, you are familiar with genome variant data and can assess the value of gene - disease prioritisation approaches, you are comfortable with developing prediction of intervention approaches by application of therapeutics. Graduate students: You have a high calibre Masters degree (or equivalent qualification) in computational biology, biomedical research, genomics, computer science, mathematics, biostatistics, systems biology or combination of these. You have a strong biological background, and are skilled in scripting with demonstrated understanding of working together with biomedical researchers and quantitative biologists. You are confident in aspects of data integration and are enthusiastic about construction and analysis of biological networks and/or data integration. Highly motivated, you wish to work in a stimulating, international, scientific environment. You have excellent interpersonal, written and oral communication skills and seek exposure to a diversity of scientific projects. Programmers: You have a combination of skills, with a strong emphasis upon programming, but with an understanding of biology, some statistics, and potentially machine learning. We welcome candidates with a desire and demonstrated ability to learn new areas and a desire to develop code in a global environment. Please include links to some of your previous code in GitHub or another repository hosting service, as well as a cover letter describing why this position interests you and how it fits your experience and interests. Sheffield is an awesome place to live - the people are kind, professional and team oriented. The Peak district is within ten minutes and is a wonderful place to relax. An online presentation (minute 47:00) at the end of my inaugural lists why this place is a great environment. Programming applicants and Post doctoral candidates should send a C.V. and statement of interest as one PDF document to winhide [at] sheffield.ac.uk. Screening of applications begins immediately and will continue until the positions are filled. The positions are expected to start on or after April-May 2015. Enquiries: Interested candidates should in the first instance contact Prof. Winston Hide on +44 114 222 22233 or by email winhide - at - sheffield.ac.uk Graduate student applicants: Please complete a University Postgraduate Research Application form available from www.shef.ac.uk/postgraduate/research/apply 
 Please clearly state the prospective main supervisor in the respective box and select (neuroscience) as the department. -- Chair of Computational Biology Sheffield Institute for Translational Neuroscience, Department of Neuroscience University of Sheffield. 385a Glossop Road, Sheffield, S10 2HQ Adjunct Professor, Harvard School of Public Health Principal Faculty, Harvard Stem Cell Institute. +44 (0) 114 2222233 Skype winhide tw @winhide -------------- next part -------------- An HTML attachment was scrubbed... URL: From arne at bioinfo.se Thu Apr 2 08:58:59 2015 From: arne at bioinfo.se (Arne Elofsson) Date: Thu, 2 Apr 2015 08:58:59 +0200 Subject: [SocBiN] Fwd: (fantom5.gsc:00015) PI position at RIKEN In-Reply-To: <551CA284.8040607@riken.jp> References: <551CA284.8040607@riken.jp> Message-ID: Dear Collaborators, RIKEN is hiring an Associate Chief Scientist, which is a full, independent PI with a permanent contract. See detail here: http://www.riken.jp/en/careers/researchers/20150401/ All the aspects of biology (but not only) are acceptable for this position; the candidate will be selected based on his/her strength, productivity, vision and project. Feel free to circulate the link above. The successful applicant(s) may chose to work within a center (for instance at our place) or fully independently elsewhere. I would suggest to young and outstanding colleagues to seriously consider this. Bet wishes, Piero -- Deputy Director of the RIKEN Center for Life Science Technologies Director of the Division of Genomic Technologies RIKEN Yokohama Campus 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045 Japan FANTOM5 project is out!: http://fantom.gsc.riken.jp/5/ Organizing IMGC 2015 in Yokohama: http://imgc2015.jp/ -------------- next part -------------- An HTML attachment was scrubbed... URL: From emreguney at gmail.com Tue Apr 7 17:23:11 2015 From: emreguney at gmail.com (Emre Guney) Date: Tue, 7 Apr 2015 11:23:11 -0400 Subject: [SocBiN] Network Medicine Symposium - June 2, 2015 - Zaragoza Message-ID: NetMed'15: Network-enabled wisdom for the personalized medicine of the complex diseasesDear colleagues and friends, We are pleased to inform you that NetMed'15 will take place in Zaragoza on June 2, 2015 right before NetSci'15.The satellite conference focuses on interdisciplinary research on network medicine from analytic methods from physics, computer science, mathematics, and statistics with the participation of a broad and diverse audience. The mission of the satellite symposium is to bring together scientists, researchers and students from multi-disciplinary fields such as network science, physics, clinical science, systems biology, proteomics and genomics. *Call for contributed talks* Deadline: April 15, 2014 Email the abstract of your work to e.guney at neu.edu or amitabh.sharma at channing.harvard.edu to be considered for a contributed talk by April 15th, 2015. Selected abstracts will be considered for travel fellowship to be presented during the meeting. For more details and registration please visit: http://barabasilab.com/netmed15/ We hope to see you in Zaragoza, Spain! NetMed'15 Organization Committee -------------- next part -------------- An HTML attachment was scrubbed... URL: From Erik.Bongcam at slu.se Thu Apr 9 16:32:44 2015 From: Erik.Bongcam at slu.se (Erik Bongcam-Rudloff) Date: Thu, 9 Apr 2015 14:32:44 +0000 Subject: [SocBiN] Fwd: Impact assessment of EMBL-EBI: Your help requested. References: <552645E4.9040203@ebi.ac.uk> Message-ID: <7EF291CE-4353-4D06-BEB3-63D7A654E77F@slu.se> An important Action! Begin forwarded message: From: EBI Survey > Subject: Impact assessment of EMBL-EBI: Your help requested. Date: 9 Apr 2015 11:27:00 GMT+2 To: erikbong at mac.com Dear Erik We are writing to you as Associate Directors of the EMBL European Bioinformatics Institute to request your support and involvement in an independent survey commissioned as part of a study to assess the value and impact of EMBL- EBI services on the communities we serve. This is an important study in a number of ways, but in particular, it will be extremely useful to be able to demonstrate to funding bodies and others the economic benefits of having freely accessible services and resources for research in the life sciences. We are approaching leaders in the life sciences community, with the hope that you may be able to cascade this survey to relevant and willing researchers you work with. Within the survey a range of methods and approaches are used including the hypothetical question of willingness to pay or accept payment to be without EMBL-EBI services. We would like to highlight that this question is being presented as a purely hypothetical one but necessary to feed into a well known economic model of assessing services that are without charge (contingent valuation). If any questions or concerns arise due to the survey please feel free to respond to this email address or ourselves directly (birney at ebi.ac.uk, apweiler at ebi.ac.uk) We are hopeful we can draw on the cooperation and goodwill of our user community to get as large a response as possible. Charles Beagrie Ltd is conducting the assessment and the online questionnaire is accessible at: https://www.surveymonkey.com/s/EBI_Impact It is estimated that the survey will take around 15 minutes to complete and it will close on Friday 8th May 2015. The results of the survey will be anonymised and disseminated in aggregate only and all personal data treated as confidential. Thank you in advance for your and your colleagues participation and input. We recognise there are many demands on your time. As a token of appreciation for contributing, all participants who complete the survey are also given the opportunity to enter a draw to win one of five Raspberry Pi 2 with Pibow Cases. Kind regards Ewan Birney and Rolf Apweiler Joint Associate Directors, EMBL-EBI -------------- next part -------------- An HTML attachment was scrubbed... URL: From nicosia at dmi.unict.it Thu Apr 9 19:03:34 2015 From: nicosia at dmi.unict.it (Giuseppe Nicosia) Date: Thu, 9 Apr 2015 19:03:34 +0200 Subject: [SocBiN] SSBSS 2015 Call for Abstracts - Synthetic & Systems Biology Summer School, Taormina - Italy July 5-9, 2015 - Discount Abstract Deadline: April 30 Message-ID: ______________________________________________________ Call for Abstracts (apologies for multiple copies) Please forward to anybody who might be interested ______________________________________________________ Synthetic & Systems Biology Summer School Taormina - Sicily, Italy, July 5-9, 2015 http://www.taosciences.it/ssbss2015/ ssbss.school at gmail.com DEADLINES Discount Abstract Deadline: April 30, 2015 Late Abstract Deadline: May 30, 2015 Discount Registration Deadline: April 30, 2015 SPEAKERS & LECTURES + Adam Arkin, University of California Berkeley, USA Lecture 1: "Genome-scale Discovery of the Determinants of Optimal Biological Function" Lecture 2: "On the Challenges in Engineering Activity in Complex Contexts from 100,000 Liter Bioreactors to Human Guts" + Jef Boeke, New York University, USA Lecture 1: TBA Lecture 2: TBA + Angela DePace, Harvard University, USA Lecture 1: "Developmental Gene Regulatory Networks" Lecture 2: "Measuring, Modeling and Manipulating Regulatory DNA" + Forbes Dewey, MIT, USA Lecture 1: "Quantitative Modeling of Molecular Pathways I: Fundamentals" Lecture 2: "Quantitative Modeling of Molecular Pathways II: Examples from Systems and Synthetic Biology" + Karmella Haynes, Arizona State University, USA Lecture 1: "Designing CRISPR for the Engineering of DNA in Mammalian Cells" Lecture 2: "Mapping and Engineering of Chromatin in Mammalian Cells" + Richard Kitney, Imperial College London, UK Lecture 1: TBA Lecture 2: TBA + Timothy Lu, MIT, USA Lecture 1: "Biological Computing and Memory with Digital and Analog Paradigms" Lecture 2: "Synthetic Biological Applications for Human Health" + Philip Maini, Oxford University, UK Lecture 1: "Mathematical Modelling of Biological Pattern Formation" Lecture 2: "Modelling Invasions" + Giancarlo Mauri, University of Milano Bicocca, Italy Lecture: "Computational Methods in Systems Biology" + Steve Oliver, Cambridge University, UK Lecture 1: "Improving the yeast metabolic model as a tool in strain design" Lecture 2: "Harnessing synthetic biology and the Robot Scientist in drug discovery" + Velia Siciliano, MIT, USA Lecture: "Synthetic Biology in Mammalian Systems for Biomedical Applications" + Ron Weiss, MIT, USA Lecture 1: TBA Lecture 2: TBA + Nicola Zamboni, ETH, Switzerland Lecture 1: "Reconstruction of metabolic regulation by large-scale metabolomics" Lecture 2: "Bottom up modeling of dynamic metabolic systems" INDUSTRIAL PANEL + Jon D. Chesnut, Life Sciences Solutions Group -Thermo Fisher Scientific, USA Lecture: "CRISPR-based Genome Editing Tools: New Applications and Streamlined Workflows" + Speaker TBA, Autodesk Inc., USA Lecture: TBA + Zach Serber, Zymergen, Inc. USA Lecture 1: TBA Lecture 2: TBA Lecture 3: TBA School Directors Jef D. Boeke, New York University, USA Giuseppe Nicosia, University of Catania, Italy Mario Pavone, University of Catania, Italy Giovanni Stracquadanio, University of Oxford, UK *Short Talk and Poster Submission* Applicants may submit a research abstract for presentation. School directors will review the abstracts and will recommend for poster or short-oral presentation. Abstract should be submitted by *April 30, 2015*. The abstracts will be published on the electronic hands-out material of the summer school. http://www.taosciences.it/ssbss2015/index.html#applicationForm http://www.taosciences.it/ssbss2015/ ssbss.school at gmail.com Apologies for multiple copies. Please forward to anybody who might be interested. This is an automatically generated email. -- Giuseppe Nicosia, Ph.D. Associate Professor of Computer Engineering Dept of Mathematics & Computer Science University of Catania Viale A. Doria, 6 - 95125 Catania, Italy P +39 095 7383048 nicosia at dmi.unict.it http://www.dmi.unict.it/nicosia ============================================================= International Synthetic & Systems Biology Summer School - SSBSS 2015 * Biology meets Computer Science & Engineering * July 5-9, 2015 - Taormina, Italy http://www.taosciences.it/ssbss2015/ ============================================================= International Workshop on Machine learning, Optimization and big Data - MOD 2015 July 21-24, 2015 - Taormina, Italy http://www.taosciences.it/mod-2015/ ============================================================= -------------- next part -------------- An HTML attachment was scrubbed... URL: From marcin at skwark.pl Mon Apr 13 14:39:02 2015 From: marcin at skwark.pl (Marcin J. Skwark) Date: Mon, 13 Apr 2015 15:39:02 +0300 Subject: [SocBiN] Symposium on protein structure prediction in Stockholm in June Message-ID: Dear colleagues, On June 8-9, 2015 Stockholm University, Royal Institute of Technology and Aalto University organize a symposium on solving the protein folding problem by direct coupling analysis and next-generation sequencing. This symposium is a forum for the discussion of all the aspects of the recent developments in the protein structure prediction field, with particular emphasis on the emerging techniques for predicting contacts between aminoacids based on large multiple sequence alignments of evolutionarily related proteins. Confirmed speakers include researchers from Swedish and Finnish universities working on the related topics, as well as keynotes by Martin Weigt (Universite Pierre et Marie Curie, Paris) and David T. Jones (University College London). The symposium registration fee is 500 SEK, which covers the cost of a dinner. The event will take place on the Karolinska Institute campus and in Science for Life Laboratory in Stockholm (Solna), Sweden. *We invite the applicants to submit abstracts for posters and/or oral presentations. *We will refund the registration fee for the authors of abstracts selected for oral presentation. More information and registration form are available at http://symposium.aurell.org On behalf of organizing committee, Marcin J. Skwark Aalto University -------------- next part -------------- An HTML attachment was scrubbed... URL: From joakim.lundeberg at scilifelab.se Mon Apr 13 15:00:03 2015 From: joakim.lundeberg at scilifelab.se (Joakim Lundeberg) Date: Mon, 13 Apr 2015 15:00:03 +0200 Subject: [SocBiN] Assistant professor in Medical Genomics Message-ID: <336BEA1C-8A16-4577-8FC1-975306C76927@scilifelab.se> Dear everyone I would like to put your attention to a recent call for assistant professor in Medical Genomics at KTH Royal Institute of Technology for placement at SciLifeLab, Stockholm (www.scilifelab.se). These attractive positions will support you and on average two employees (postdocs/PhD students/BMA) for 4 years and you may apply for promotion to tenured Associate Professor after four years. The Science for Life Laboratory (SciLifeLab) is a collaboration between four universities in Stockholm and Uppsala: Stockholm University, Karolinska Institutet, the KTH - Royal Institute of Technology (KTH) and Uppsala University. The center combines advanced technical know-how and state-of-the-art equipment with a broad knowledge in translational medicine and molecular bioscience. SciLifeLab is a competitive center for high-throughput biosciences with platforms in genomics, comparative genetics, proteomics, bioimaging and functional genomics as well as research communities (programs) in biology, medicine and environmental sciences. Deadline: 29th May, 2015 Full description: https://www.kth.se/en/om/work-at-kth/lediga-jobb/what:job/jobID:58443/where:4/ Best regards Joakim Lundeberg .............................................................................................................................................................................................. Joakim Lundeberg Prof Visiting address Science for Life Laboratory (Karolinska Institute Science Park) KTH, School of Biotechnology Tomtebodavägen 23 A S- 171 65 Solna, Sweden Postal Address: PO Box 1031 SE-171 21 Solna Sweden Phone: +46-8-524 814 69 Text/sms: +46-70 458 23 46 E-mail: joakim.lundeberg at scilifelab.se or joakim.lundeberg at biotech.kth.se From arne at bioinfo.se Mon Apr 13 22:23:42 2015 From: arne at bioinfo.se (Arne Elofsson) Date: Mon, 13 Apr 2015 22:23:42 +0200 Subject: [SocBiN] Fwd: Assistant professor in Medical Genomics In-Reply-To: <62b5d08e7d2c4670ba3a781367b687e2@EBOX-PROD-SRV01.win.su.se> References: <62b5d08e7d2c4670ba3a781367b687e2@EBOX-PROD-SRV01.win.su.se> Message-ID: Dear everyone I would like to put your attention to a recent call for assistant professor in Medical Genomics at KTH Royal Institute of Technology for placement at SciLifeLab, Stockholm (www.scilifelab.se). These attractive positions will support you and on average two employees (postdocs/PhD students/BMA) for 4 years and you may apply for promotion to tenured Associate Professor after four years. The Science for Life Laboratory (SciLifeLab) is a collaboration between four universities in Stockholm and Uppsala: Stockholm University, Karolinska Institutet, the KTH - Royal Institute of Technology (KTH) and Uppsala University. The center combines advanced technical know-how and state-of-the-art equipment with a broad knowledge in translational medicine and molecular bioscience. SciLifeLab is a competitive center for high-throughput biosciences with platforms in genomics, comparative genetics, proteomics, bioimaging and functional genomics as well as research communities (programs) in biology, medicine and environmental sciences. Deadline: 29th May, 2015 Full description: https://www.kth.se/en/om/work-at-kth/lediga-jobb/what:job/jobID:58443/where:4/ Best regards Joakim Lundeberg .............................................................................................................................................................................................. Joakim Lundeberg Prof Visiting address Science for Life Laboratory (Karolinska Institute Science Park) KTH, School of Biotechnology Tomtebodavägen 23 A S- 171 65 Solna, Sweden Postal Address: PO Box 1031 SE-171 21 Solna Sweden Phone: +46-8-524 814 69 Text/sms: +46-70 458 23 46 E-mail: joakim.lundeberg at scilifelab.se or joakim.lundeberg at biotech.kth.se _______________________________________________ SocBiN mailing list SocBiN at lists.su.se https://lists.su.se/mailman/listinfo/socbin-at-sbc.su.se -------------- next part -------------- An HTML attachment was scrubbed... URL: From p.d.moerland at amc.uva.nl Wed Apr 15 10:26:40 2015 From: p.d.moerland at amc.uva.nl (P.D. Moerland) Date: Wed, 15 Apr 2015 08:26:40 +0000 Subject: [SocBiN] PhD positions for EpiPredict Message-ID: <8823E04BA6DB5542B0AF99D1CB3B810A306A4A11@MS-APP-804D.amc.intra> 12 PhD positions for EpiPredict project The EpiPredict EU Innovative Training Network focuses on epigenetic regulation of endocrine therapy resistance in breast cancer, an urgent clinical problem. EpiPredict includes 15 (academic and private) organisations from eight different countries, providing unique research training to 12 PhD students. The multidisciplinary fellows will master and apply urgently needed new approaches to address complex diseases taking personalized patient aspects and systems medicine into consideration being equipped to succeed in their careers. Strong involvement of the private sector ensures exploitation of EpiPredict achievements and exposure to an entrepreneurial mind-set. Four PhD positions are available with a strong (integrative) bioinformatics and systems biology component. For more recruitment information visit: www.EpiPredict.eu --- Perry Moerland, PhD Room J1B-215 Bioinformatics Laboratory, Department of Clinical Epidemiology, Biostatistics and Bioinformatics Academic Medical Center, University of Amsterdam Postbus 22660, 1100 DD Amsterdam, The Netherlands tel: +31 20 5666945 p.d.moerland at amc.uva.nl, http://www.bioinformaticslaboratory.nl/ ________________________________ AMC Disclaimer : http://www.amc.nl/disclaimer ________________________________ -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: EpiPredict_ITN_Flyer_Recruitment.pdf Type: application/pdf Size: 404286 bytes Desc: EpiPredict_ITN_Flyer_Recruitment.pdf URL: From samuel.kaski at aalto.fi Thu Apr 16 07:23:02 2015 From: samuel.kaski at aalto.fi (Kaski Samuel) Date: Thu, 16 Apr 2015 05:23:02 +0000 Subject: [SocBiN] Postdoc and research fellow positions in Helsinki, DL 26.4.2015 Message-ID: <15C18E99-D55F-46D9-9EDF-2D07B89E9CDA@aalto.fi> Postdoctoral and Research Fellow Positions in Computer Science in Helsinki, Finland Computational biology and medicine positions are included. List of the available 8 positions: https://www.hiit.fi/node/2857 Full call text: http://www.aalto.fi/en/about/careers/jobs/view/451/ Application deadline: 26.4.2015. From marcin at skwark.pl Thu Apr 16 09:22:05 2015 From: marcin at skwark.pl (Marcin J. Skwark) Date: Thu, 16 Apr 2015 10:22:05 +0300 Subject: [SocBiN] Symposium on protein structure prediction in Stockholm in June Message-ID: Dear colleagues, On June 8-9, 2015 Stockholm University, Royal Institute of Technology and Aalto University organize a symposium on solving the protein folding problem by direct coupling analysis and next-generation sequencing. This symposium is a forum for the discussion of all the aspects of the recent developments in the protein structure prediction field, with particular emphasis on the emerging techniques for predicting contacts between aminoacids based on large multiple sequence alignments of evolutionarily related proteins. Confirmed speakers include researchers from Swedish and Finnish universities working on the related topics, as well as keynotes by Martin Weigt (Universite Pierre et Marie Curie, Paris) and David T. Jones (University College London). The symposium registration fee is 500 SEK, which covers the cost of a dinner. The event will take place on the Karolinska Institute campus and in Science for Life Laboratory in Stockholm (Solna), Sweden. *We invite the applicants to submit abstracts for posters and/or oral presentations. *We will refund the registration fee for the authors of abstracts selected for oral presentation. More information and registration form are available at http://symposium.aurell.org On behalf of organizing committee, Marcin J. Skwark Aalto University -------------- next part -------------- An HTML attachment was scrubbed... URL: From Inge.Jonassen at ii.uib.no Fri Apr 17 21:58:44 2015 From: Inge.Jonassen at ii.uib.no (Inge Jonassen) Date: Fri, 17 Apr 2015 21:58:44 +0200 Subject: [SocBiN] system developer - bioinformatics in Bergen, Norway Message-ID: <694EE7BA-CB08-4CE5-A5E5-F2095D523E8D@ii.uib.no> We have available a three-years position as system developer at the Computational Biology Unit in Bergen. For more information, and to submit your application, see http://www.jobbnorge.no/ledige-stillinger/stilling/113047/senioringenioer-overingenioer-systemutviklar-mellombels-stilling Inge Inge Jonassen, Prof PhD Head of Node, Elixir Norway Computational Biology Unit Department of Informatics University of Bergen HiB N5020 Bergen Norway inge at ii.uib.no -------------- next part -------------- An HTML attachment was scrubbed... URL: From finn.drablos at ntnu.no Mon Apr 20 08:49:44 2015 From: finn.drablos at ntnu.no (=?UTF-8?B?RmlubiBEcmFibMO4cw==?=) Date: Mon, 20 Apr 2015 08:49:44 +0200 Subject: [SocBiN] Tenure-track position in bioinformatics at NTNU Message-ID: <5534A188.2080501@ntnu.no> Onsager Fellowship - Tenure-track position in bioinformatics The Norwegian University of Science and Technology (NTNU) in Trondheim, Norway, is announcing 12 tenure-track positions, including a position in bioinformatics. The position will have a strong involvement in bioinformatic analysis of large human data sets of medical relevance, in particular genome-wide genotyping and whole genome sequencing analysis data from population studies together with associated phenotypes and other relevant data. General information about the Onsager fellowships can be found here , for specific information on the position in bioinformatics, please follow the link for "Medicine - bioinformatics" on that page. Application deadline is May 25, 2015. Please feel free to distribute! Regards, Finn Drabløs -- Department of Cancer Research and Molecular Medicine, Faculty of Medicine, Norwegian University of Science and Technology (NTNU) POST : P.O. Box 8905, NO-7491 Trondheim, NORWAY VISIT: Laboratory Center, Erling Skjalgsons gt. 1 Web http://bigr.medisin.ntnu.no Phone +47 72573333 From hhu at bio.ku.dk Mon Apr 20 12:35:54 2015 From: hhu at bio.ku.dk (Henriette Husum Bak-Jensen) Date: Mon, 20 Apr 2015 10:35:54 +0000 Subject: [SocBiN] Invitation to join first annual Danish bioinformatics conference 27-28 August 2015 in Odense Message-ID: Dear bioinformaticians, Elixir Denmark wishes to bring together the Danish bioinformatics community in Life Science and hereby invites you to participate in the first Annual Danish Bioinformatics conference from 27-28 August 2015 in Odense. Do not miss this great opportunity to participate and network in this first scientific bioinformatics event for all bioinformaticians within Danish life science. The aim of the conference is to provide bioinformaticians in Denmark, or with ties to our community, to learn about the latest on Danish bioinformatics research and tools development. Registration and further information can be found on the conference website which you access via Elixirs website ELIXIR DK (http://elixir-node.cbs.dtu.dk/?page_id=126) . At the site, please also subscribe to our new Elixir DK mailing list. To ensure that you have a hotel near the event please register and book your accommodation via the site by 15 June 2015. Students participate free of charge and for non-students the fee is only 1.000,00 DKK if you register by 15 May and 1.350,00 DKK after this date. The fee includes participation in all sessions, catering, dinner and social activities. We look forward to seeing you! And kindly forward this invitation to Danish (or with ties to Denmark) bioinformaticians who you suspect are not reached on Cph-bioinformatics at lists.binf.ku.dk or Socbin at sbc.su.se Kind regards The Programme Committee: Prof. Jan Gorodkin (KU Health), Prof. Albin Andelin (KU SCIENCE), Prof. Mikkel Heide Schierup (AU), Prof. Ole Nørregaard Jensen (SDU), Prof. Søren Brunak (DTU), Prof. Anders Krogh (KU SCIENCE). [cid:image002.jpg at 01D07B64.ED066630] -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: image002.jpg Type: image/jpeg Size: 6106 bytes Desc: image002.jpg URL: From alvarani at gmail.com Mon Apr 20 14:04:57 2015 From: alvarani at gmail.com (alva james) Date: Mon, 20 Apr 2015 14:04:57 +0200 Subject: [SocBiN] Young Scientists in Cancer Research - Satellite PhD Symposium, Berlin, June 07, 2015 Message-ID: Hello All, Following is the information, http://mkfz.charite.de/en/news/conferences/otbic_2015/young_scientists_symposium/ Young Scientists in Cancer Research - Satellite PhD Symposium, Berlin, June 07, 2015 For the first time the "in Cancer” conference in Berlin is accompanied by a satellite symposium for young scientists in cancer research. The aim of the satellite symposium is to bring aspiring PhD students from the broad cancer research field together. We seek to create an inspiring meeting to enable an exchange of ideas and provide a platform for project discussions for those who are in an early step in their research career. The satellite symposium is initiated by graduate students from the Berlin School of Integrative Oncology (http://www.bsio-cancerschool.de/) >From young scientists for young scientists Given a dense time schedule studded with numerous of high profile senior scientists from the field, major conferences like the "in Cancer" meeting are only able to provide a limited number of slots for PhD students. Poster sessions are a well received complement to enable PhD students to discuss their work outside their working groups. Taking the involvement of PhD students a step further, the satellite meeting for young scientists in cancer research now encourages 10 junior researchers to communicate their projects and to share their progress in an oral presentation to a broader audience. The symposium aims to provide a friendly environment with other young fellow scientists and interested participants of the main conference and to help young researchers grow their professional network. Apply for a talk at YSiCR satellite symposium Along with your registration for the "Overcoming treatment barriers in Cancer 2015" conference you can apply for a talk at the "Young Scientists in Cancer Research" satellite symposium. -- Kind Regards, Alva Rani James -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: ysicr_logo_2015_high.png Type: image/png Size: 111294 bytes Desc: not available URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: ysicr_logo_2015_high.png Type: image/png Size: 111294 bytes Desc: not available URL: From Fredrik.Ronquist at nrm.se Thu Apr 23 08:10:23 2015 From: Fredrik.Ronquist at nrm.se (Fredrik Ronquist) Date: Thu, 23 Apr 2015 06:10:23 +0000 Subject: [SocBiN] 3 interdisciplinary PhD student positions in insect biosystematics / informatics / genomics Message-ID: <08689FC4-A25D-4F2E-9375-3C2802A342D0@nrm.se> 3 INTERDISCIPLINARY PHD STUDENT POSITIONS IN INSECT BIOSYSTEMATICS / INFORMATICS / GENOMICS at the Swedish Museum of Natural History, Stockholm The positions form part of a group of 15 PhD students now being recruited to the EU-funded Marie Sklodowska-Curie Innovative Training Network BIG4. The core of BIG4 is interdisciplinary, cutting-edge research on the diversity and evolution of the four largest insect orders: Hymenoptera, Diptera, Coleoptera, and Lepidoptera (‘Biosystematics, Informatics and Genomics of the 4 big insect groups’). The program offers unique opportunities in terms of preparing students for an academic or a business career. The training will include secondment to other European labs in the network, and to small companies in the biotechnology and IT sector. The program also includes network-wide training events, and seeks to build student skills in entrepreneurship, creativity and innovation. One PhD student (I) will be using genomic approaches to analyze phylogenetic relationships among gall wasps, which have proved hard to resolve using traditional methods. The genomic data will then form the basis for identification and functional analysis of genes involved in the transitions between parasitoids, gall inducers and inquilines in this group of insects. One PhD student (II) will develop new methods for analyzing environmental samples using massively parallel sequencing. In particular, we will be focusing on methods allowing broad qualitative and quantitative taxonomic analysis of the insect fauna in Malaise trap samples and soil samples. We will then use these methods to study the composition and spatial structure of insect faunas. One PhD student (III) will be focused on the use of citizen science in accelerating research and discovery in insect systematics. For a suitable group of poorly known insects, we will develop visual identification aids based on advanced image analysis. The aim is to generate interest among citizen scientists in contributing to the systematic research on the chosen group, using a commercially viable app. All three PhD student positions will be formally associated with the Department of Zoology at Stockholm University, which will award the PhD degrees. Two of the positions (I + II) will be hosted by he Ronquist lab at the Swedish Museum of Natural History; one (III) will be hosted by Savantic AB but supervised by the Ronquist lab, where some of the practical work will be done. The Ronquist lab is one of the world leaders in the development of software for computational phylogenomics using Bayesian statistical methods. We also lead major biodiversity informatics initiatives, and collaborate with SciLifeLab, the national Swedish next-generation sequencing facility. Savantic AB (http://savanticab.com) is a consultant company specializing in bridging the gap between the research and business worlds. All consultants have a doctoral degree in physics. Specialty areas include image analysis, medical technology and environmental technology. We are looking for candidates with a broad background, preferably including studies or training in entomology, genomics, bioinformatics, and programming. We expect that you will be creative and independent while being a good team player. Fluency in spoken and written English is essential. We will pay particular attention to scientific and creative talent and potential. To be eligible for these positions, you need to fill the formal requirements to start a PhD program in biology, broadly construed, and less than 4 years of research experience counted as time of employment in research since receiving the degree for enrollment in a PhD. You cannot have resided or carried out your main activity (work or study) in Sweden for more than 12 months in the 3-year period immediately prior to the recruitment under the project. Starting date is August 15, 2015. The positions are for four years. For more information about the positions, contact Professor Fredrik Ronquist, Head of the Department of Bioinformatics and Genetics (fredrik.ronquist at nrm.se; +46 – 8 5195 4094). For more information about Savantic AB, contact Karin Carlsson (karin at savanticab.com). The application should consist of a personal letter, a statement describing research interests and career goals (max 3 pages), a CV, and a transcript of your MSc diploma or equivalent. Applications for positions I and II should be marked with dnr 2.3.1-182-2015 and sent to rekrytering at nrm.se; applications for position III should be sent to Karin Carlsson at Savantic AB (karin at savanticab.com). Applications should be received no later than May 29, 2015. Fredrik Ronquist Professor, Dept. Bioinformatics and Genetics Swedish Museum of Natural History, Stockholm email: fredrik.ronquist at nrm.se From Fredrik.Ronquist at nrm.se Thu Apr 23 08:15:54 2015 From: Fredrik.Ronquist at nrm.se (Fredrik Ronquist) Date: Thu, 23 Apr 2015 06:15:54 +0000 Subject: [SocBiN] Postdoc in Bayesian biodiversity analysis Message-ID: <7C1C236E-22C5-4760-94C3-E12C2C621D35@nrm.se> POSTDOC in BAYESIAN BIODIVERSITY ANALYSIS at the Swedish Museum of Natural History Our group develops methods for Bayesian phylogenetic and phylogenomic inference, with numerous applications across the life sciences. We focus on applications to problems in evolutionary biology, biogeography and biodiversity, but the software we produce, MrBayes (http://mrbayes.net) and RevBayes (http://revbayes.com), is widely used for other problem areas as well. In this project, funded by the Swedish Research Council, we will focus on analyses of data from massively parallel sequencing projects with RevBayes, our R-like computing environment. RevBayes is based on graphical model concepts, and is primarily intended for Bayesian analysis of complex evolutionary models. Within this general context, the successful candidate will have great freedom in formulating her or his project. The project can be focused on method development or empirical analyses, but should include a substantial computational component. The ideal candidate should have a doctoral degree in evolutionary biology, bioinformatics, mathematics, statistics, or computer science. Regardless of your background, you should be familiar with biological research problems, be comfortable with mathematical and statistical reasoning, and have solid computational and programming skills. We will pay particular attention to scientific talent and potential. The position is for two years with preferred starting date in the early fall of 2015. The Swedish Museum of Natural History (NRM) is one of the leading institutions of its kind in Europe. It combines a venerable tradition and unique collections with cutting-edge research in geology, paleontology and biology. The museum is close to Stockholm University, the Royal School of Engineering (KTH) and the Karolinska Institute. The Stockholm Phylogenomics Group (http://phylogenomics.se) engages research groups from all of these institutions. The Department of Bioinformatics and Genetics at NRM is focused on research in computational phylogenetics, population genetics and genomics. We run a DNA sequencing facility and host several national and international infrastructures. The application should consist of a personal letter, a description of the planned research project (max 5 pages), and a CV. Mark your application with dnr 2.3.1-181-2015 and send it to rekrytering at nrm.se no later than May 29, 2015. Fredrik Ronquist Professor, Dept. Bioinformatics and Genetics Swedish Museum of Natural History, Stockholm email: fredrik.ronquist at nrm.se From iamb at genesilico.pl Thu Apr 23 09:16:23 2015 From: iamb at genesilico.pl (Janusz Bujnicki) Date: Thu, 23 Apr 2015 09:16:23 +0200 Subject: [SocBiN] Group leader position in Poznan, Poland In-Reply-To: References: Message-ID: <55389C47.9050705@genesilico.pl> Adam Mickiewicz University in Poznań (AMU) and International Institute of Molecular and Cell Biology in Warsaw (IIMCB) invite applications for *Research Group Leader in Bioinformatics* We seek a talented and dynamic scientist early in his/her career to establish a joint AMU & IIMCB research group located at the Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University (IBMIB-AMU) in Poznań, Poland. IIMCB (http://iimcb.gov.pl) and Faculty of Biology AMU to which IBMIB-AMU (http://ibmib.amu.edu.pl) are among Poland’s top-ranked academic institutions in the field of biology, working together based on a bilateral agreement. Research topics at both institutes cover a wide spectrum of molecular and cellular biology, biotechnology, structural and computational biology. Both institutes are involved in various national and international research projects and provide cutting-edge equipment and facilities for wet-lab work and bioinformatics. IBMIB-AMU, where the group will be located, is situated at a modern academic Morasko campus in Poznań and provides outstanding research opportunities for their scientists in a stimulating environment. For the Research Group Leader position we will consider candidates with a strong scientific track record in bioinformatics and clear evidence of leadership as well as an ability to attract extramural funding. The successful candidate will be expected to develop an independent research program in bioinformatics to complement research activities in IBMIB-AMU and IIMCB, and will be responsible for teaching a course in bioinformatics and training of young scientists within the framework of MSc and PhD studies at AMU. The startup package includes the salary of the group leader, two PhD student positions, start-up funding, furnished laboratory and office space at IBMIB-AMU and access to all shared equipment of both institutions. The initial contract will be for 5 years, with a possible extension dependent on the results of periodic evaluation(s). The position is open from October 1, 2015, however the starting date is negotiable. Deadline for application is June 30, 2015. Applications should be submitted by email to rekrutacja at iimcb.gov.pl Applications should include: • a cover letter explaining reasons for application, • a Curriculum Vitae including a list of publications, • a statement of scientific achievements (up to 1 page), • a summary of the applicant’s future research plans (2 pages) including potential for prospective collaboration with particular groups at IBMIB-AMU and IIMCB, • addresses of two academic reference persons, • copies of three most important papers, • one page description of candidate’s experience in teaching and a summary of proposed MSc and PhD-level courses in bioinformatics The application must contain the following statement: "In accordance with the personal data protection act from 29th August 1997, I hereby agree to process and to store my personal data by the Institution for recruitment purposes”. From bjorn.nystedt at scilifelab.se Thu Apr 23 13:31:39 2015 From: bjorn.nystedt at scilifelab.se (=?iso-8859-1?Q?Bj=F6rn_Nystedt?=) Date: Thu, 23 Apr 2015 13:31:39 +0200 Subject: [SocBiN] Job: Six permanent positions for advanced national bioinformatics support in Sweden Message-ID: Six (6) permanent positions providing advanced bioinformatics support, located at SciLifeLab Bioinformatics Platform nodes across Sweden. The SciLifeLab bioinformatics platform is a national infrastructure in rapid growth and development, now looking for 6 permanent staff members to join the Bioinformatics Long-term Support team (a.k.a WABI), placed at bioinformatics nodes in Umeå, Linköping, Göteborg, and Lund. The advertised staff will be fully integrated in the national Bioinformatics Long-term support team, and will aid the build-up of the national platform by establishing local platform nodes. To be considered for these positions * you now need to submit a formal application to the respective university, following the below links * you will have to apply to each position individually if you are open to work in any of the cities below. Please follow the links for more information and application forms: Lund: https://lu.mynetworkglobal.com/en/what:job/jobID:62539/where:4/ Göteborg http://www.chalmers.se/en/about-chalmers/vacancies/?rmpage=job&rmjob=3027 Umeå https://umu.mynetworkglobal.com/en/what:job/jobID:63586/where:4/ Linköping http://www.liu.se/jobba/lediga-jobb?l=en&&rmpage=job&rmjob=1701&rmlang=UK We are looking forward to receive your applications at the latest May 7, 2015 (a week later for Linköping). You are always welcome to contact both the local contact person or the Bioinformatics Long-term Support managers regarding these positions. Björn Nystedt, bjorn.nystedt at scilifelab.se, +46 (0)73-402 62 31 Thomas Svensson, thomas.svensson at scilifelab.se, +46 (0)73-625 14 88 Managers, SciLifeLab Bioinformatics Long-term Support ------------------------------------------------ Bjorn Nystedt, PhD Manager, SciLifeLab Bioinformatics Long-term Support (WABI) www.scilifelab.se/facilities/wabi/ BMC E10:3206, entrance C11 Husargatan 3, SE-752 37 Uppsala Phone: 018 - 471 4413 E-mail: bjorn.nystedt at scilifelab.se ------------------------------------------------ -------------- next part -------------- An HTML attachment was scrubbed... URL: From arne at bioinfo.se Tue Apr 28 08:53:16 2015 From: arne at bioinfo.se (Arne Elofsson) Date: Tue, 28 Apr 2015 08:53:16 +0200 Subject: [SocBiN] Fwd: Biomedical Software Developers In-Reply-To: <0132AACE-C89D-4881-AC28-361795024580@scilifelab.se> References: <0132AACE-C89D-4881-AC28-361795024580@scilifelab.se> Message-ID: Dear everyone, We are currently looking for two outstanding software developers for the Spatial Transcriptomics project. The ads and more info can be found here: Backend https://www.kth.se/en/om/work-at-kth/lediga-jobb/what:job/jobID:62364/where:4/ Frontend https://www.kth.se/en/om/work-at-kth/lediga-jobb/what:job/jobID:62374/where:4/ Please spread the word! All the best, Patrik Patrik Ståhl, PhD SciLifeLab, Alfa floor 3 patrik.stahl at scilifelab.se -------------- next part -------------- An HTML attachment was scrubbed... URL: