From coordinator at rth.dk Tue Apr 1 11:45:20 2014 From: coordinator at rth.dk (Betina Wingreen) Date: Tue, 1 Apr 2014 11:45:20 +0200 Subject: [SocBiN] Available PhD Fellowship in Computational RNA biology Message-ID: <003001cf4d8f$187226b0$49567410$@rth.dk> Dear Colleague, The RTH center in Copenhagen has an open PhD position in Computational RNA Biology and we are looking for a person to join our team from 1st May 2014, or soon thereafter. The position is for three years. Application deadline is 2014-04-24. For more information about the RTH center visit http://rth.dk. For the full posting, please see the attachment and for the online application procedure visit: http://www.ku.dk/stillinger/vip/ under PhD stipends. Please pass this mail on to qualified students or people you think could be otherwise interested. Best wishes, Betina Wingreen Jensen -- Betina Wingreen Jensen Scientific and Administrative Coordinator Center for non-coding RNA in Technology and Health Department of Veterinary Clinical and Medical Sciences University of Copenhagen Groennegaardsvej 3 1870 Frederiksberg C Denmark Phone: +4535334704 Mob: +4521510932 -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: PhD_CompRNABiol.pdf Type: application/pdf Size: 55346 bytes Desc: not available URL: From carl at thep.lu.se Tue Apr 1 12:20:53 2014 From: carl at thep.lu.se (Carl Troein) Date: Tue, 01 Apr 2014 12:20:53 +0200 Subject: [SocBiN] Postdoctoral fellow: Computational Biology at Lund University Message-ID: <533A9305.70904@thep.lu.se> Dear all, We are looking to recruit a postdoc in Computational biology for a two-year fellowship, as part of a larger project on Molecular Interactions Controlling soil Carbon Sequestration, MICCS: http://miccs.info/ We are looking for someone with a PhD in computational biology, machine learning, statistics or some related dicipline. The project is focused on connecting gene expression (from next-generation sequencing) with alterations in soil organic matter (measured with IR spectroscopy). In short, the fellow will model the relationship between these high-dimensional data to identify patterns and possible mechanisms, with an eye towards predicting the fate of carbon in soil organic matter. The fellowship and application procedure are described in detail here: http://www.biology.lu.se/upload/MolEkol/MicrEcol/4Postdocfellowshipcompbiol.pdf A poster about all four fellowships and six PhD studentships in MICCS can be found here: http://cbbp.thep.lu.se/~carl/Advert%20MICCS%20LU.pdf Kind regards, //Carl Troein -- Carl Troein - carl at thep.lu.se http://cbbp.thep.lu.se/~carl/ From Carsten.Daub at ki.se Wed Apr 2 17:32:23 2014 From: Carsten.Daub at ki.se (Carsten Daub) Date: Wed, 2 Apr 2014 15:32:23 +0000 Subject: [SocBiN] Fwd: looking for computational biologists References: Message-ID: Computational Biologist position in Berlin, see below. Best, Carsten Internal job advertisement Reg.-no. 10465/2014 For: BIMSB Bioinformatics / Mathematical Modelling we are looking for one Computational Biologist high-throughput data analysis and statistical modelling. The MDC Berlin-Buch is a member of the Helmholtz Association of National Research Centers, and its focus is biomedical research in the areas of Cardiovascular and Metabolic diseases, Cancer and Function and Dysfunction of Nervous System. The Berlin Institute for Medical Systems Biology (BIMSB) of the MDC expands and adds systems biology approaches to decipher the ?post-transcriptional regulatory code? and to directly integrate it with other major cellular and gene regulatory mechanisms. Description As a computational biologist you will be a member of the Scientific Bioinformatics Platform and report to the head of the platform, Dr. Altuna Akalin. You will be responsible for data analysis and method development for genomics data sets including but not limited to high-throughput sequencing datasets. You will be interacting and collaborating with BIMSB research groups as well as supporting research in computational epigenomics and gene regulation within the platform. Requirements Applicants should have PhD degree in computational genomics, bioinformatics, computer science, statistics or equivalent. We are looking for talented researchers with a proven track record in bioinformatics, specifically in computational genomics. The ideal candidate should have excellent programming skills for data analysis preferably in R and in one of the scripting languages such as Perl/Python. In addition, experience in C/C++ would be beneficial and highly desirable. Statistics and machine learning course work and/or demonstrated application of those in previous research is also necessary. Experience and/or interest in database technologies (SQL and/or noSQL), traditional high-performance computing clusters and newer technologies such as Hadoop would be a plus. The candidate should be familiar with fundamentals of molecular biology and fluent in spoken and written English. The technical expertise is complemented by essential soft skills, the ability to communicate and work in teams, flexibility and targeted action. Salary Re-numeration is according to the German TV?D (Bund/Ost) scale (E13). The MDC is an equal opportunity employer. Time limit 2nd May 2014 Entry The successful candidate should start as soon as possible. Limitation The position is available for 2 years in the first instance, with a possibility for further extension. Links https://www.mdc-berlin.de/13800178/en/bimsb For further information please contact: If you have any questions to the position, please contact altuna.akalin at mdc-berlin.de Postal Address: Please submit your application (CV including publications, two reference contact details, degree certificates (diplomas) and research statement (600 words max)), indicating the registration-number 10465/2014 as a single PDF document by electronic mail to Ms. Sabrina Deter (sabrina.deter at mdc-berlin.de) by the 2nd May 2014. Disabled applicants holding the same qualification are given preference. Applications by women are explicitly encouraged. Notice from: 04.04.2014 Valid until: 02.05.2014 Begin forwarded message: From: Altuna Akalin > Subject: looking for computational biologists Date: April 1, 2014 10:57:11 AM GMT+02:00 To: Carsten Daub > Hi Carsten, [?] I have the attached Computational Biologist position to be filled. The job requires analysis of mostly (but not only) HT-seq data (ChIP-seq, RNAseq, PAR-CLIP, Bisulfite-seq) and method development for such analysis. Someone with the knowledge of statistics, machine-learning, R and with enthusiasm would be great. The contract is offered in 2 year extensions, there is a possibility to get unlimited contract in the future. Could you forward it to the people who are qualified and might be interested? Best, Altuna -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: Stellenausschreibung 10465-2014.doc Type: application/msword Size: 131584 bytes Desc: Stellenausschreibung 10465-2014.doc URL: From paolo.dm.romano at gmail.com Thu Apr 3 10:29:29 2014 From: paolo.dm.romano at gmail.com (Paolo Romano) Date: Thu, 3 Apr 2014 10:29:29 +0200 Subject: [SocBiN] NETTAB 2014 & Crystal (cl)Year 2014, October 16-17, 2014, Torino, Italy Message-ID: Dear SocBiN members, in the hope that it can be of your interest, I'm sending you some information on next NETTAB 2014 workshop and its joint meeting "2014: Crystal (cl)Year". As you will see, the workshop will be held in Torino, quite near to the French border indeed, from October 16 to 17, 2014, at the Molecular Biotechnology Center (MBC) of the local University. The main theme of the NETTAB 2014 is "From high-throughput structural bioinformatics to integrative systems biology". Main topics relate to methods, tools, applications, and perspectives on structural bioinformatics, proteomics and integrative systems biology. We have already agreed with BMC for the post workshop publication of two supplements of BMC Bioinformatics and of BMC Systems Biology including selected full papers from the workshop. A synthesis of the main information is reported here below. You will find the complete call for abstracts and much more information in the events' web sites: NETTAB 2014: http://www.nettab.org/2014/ CCY 2014: http://www.nettab.org/2014/CCY/ I hope you will be interested in submitting and attending. Please don't hesitate to ask for any further information. Best regards. Paolo Romano ===== NETTAB 2014 *From high-throughput structural bioinformatics to integrative systems biology* October 15-17, 2014, Molecular Biotechnology Center (MBC), Turin, Italy http://www.nettab.org/2014/ *Keynote Speakers* * Wolfgang Marwan, Otto-von-Guericke Universit?t, Magdeburg, Germany * Ram Samudrala, University of Washington, Seattle, USA * Torsten Schwede, University of Basel, Switzerland * Ada Yonath, Weizmann Institute of Science, Rehovot, Israel (Nobel Laureate) *Important dates* * Submission of abstracts for oral communications: July 21, 2014 * Submission of abstracts for posters: September 1, 2014 * Early registration deadline: July 31, 2014 *Instructions for abstract submission* Authors are invited to submit abstracts through EasyChair at: https://www.easychair.org/conferences/?conf=nettab2014 . Abstract length should not exceed 4 pages for oral communications and 2 pages for posters. Accepted abstracts will be printed in the conference proceedings. *Post-workshop publication* Two special issues will appear as supplements of BMC Bioinformatics and of BMC Systems Biology. The related Call for papers will be launched shortly after the workshop. *Chairs* Francesca Cordero (University of Torino, Italy) Paolo Romano (IRCCS AOU San Martino, Italy) Torsten Schwede (University of Basel, Switzerland) *Under the Patronage of* (confirmed only) * Italian Society of Bioinformatics (BITS) * Rete Ligure di Bioinformatica (ReLiB) ==== *2014: Crystal (cl)Year* October 16-17, 2014, Molecular Biotechnology Center (MBC), Turin, Italy http://www.nettab.org/2014/CCY/ *Keynote Speakers* * Eddy Arnold, Rutgers University, USA * David Blake, NASA-AMES, USA * Brian K. Kobilka, Stanford University, USA (Nobel Laureate 2012) * Paul Steinhardt, Princeton University, USA * John Walker, MRC Cambridge, UK (Nobel Laureate 1997) * Ada Yonath, Weizmann Institute, IL (Nobel Laureate 2009) *Travel Grants or Free Registrations will be available for Young Scientists* *Under the Patronage of* * Italian Association of Crystallography (AIC) * European Crystallographic Association (ECA) * International Union of Crystallography (IUCr) -- Paolo Romano Bioinformatics Lab, Biopolimers and Proteomics Service IRCCS AOU San Martino IST, Genova, Italy Email: paolo.dm.romano at gmail.com From jonkl at ifi.uio.no Thu Apr 3 15:35:23 2014 From: jonkl at ifi.uio.no (=?ISO-8859-1?Q?=22Jon_K=2E_L=E6rdahl=22?=) Date: Thu, 03 Apr 2014 15:35:23 +0200 Subject: [SocBiN] SocBiN Bioinformatics 2014 - NEW deadline Message-ID: <533D639B.2060503@medisin.uio.no> ==================================================================== NEW DEADLINE April 7 for Early bird registration and Oral presentation abstract submission! ==================================================================== We are proud to announce the 14th SocBiN (Society for Bioinformatics in Northern Europe) annual conference in bioinformatics, to be held June 11-13 in Oslo, Norway. The conference in 2014 is organized by the Norwegian Bioinformatics Platform/ELIXIR Norway. The programme includes 18 plenary lectures/keynotes given by distinguished international scientists covering a diverse range of topics, including Comparative genomics and phylogeny, Metagenomics, Post-ENCODE bioinformatics, Gene regulation, Marine genomics, and Tools and technologies for integrative bioinformatics. Keynotes include: Eugene V. Koonin (NCBI, Bethesda, USA) Frank Oliver Gl?ckner (MPI for Marine Microbiology, Bremen, Germany) Jun Liu (Harvard University, USA) Gary Stormo (Washington University, St Louis, USA) Steve Pettifer (University of Manchester, UK) For a detailed presentation of the conference, including the full list of invited speakers, please visit the conference website: https://www.bioinformatics2014.no There will also be approximately 20 oral presentations selected from submitted abstracts, as well as poster sessions. Key dates (Note!!): April 7: Deadline for Early bird registration April 7: Oral presentation abstract deadline May 15: Poster abstract deadline Sign up now and take advantage of the Early bird discount and the very favorable conference fee for MSc and PhD students! Welcome to Oslo for 3 days filled with science and fun! Regards, The SocBiN Bioinformatics 2014 organizing committee ######################## -- ----------------------------------------------------------------------- Dr. Jon K. Laerdahl mobile: +47 99 50 73 35 e-mail: jonkl at medisin.uio.no The Bioinformatics Group, Department of Microbiology, Oslo University Hospital - Rikshospitalet Bioinformatics Core Facility & Computational Life Science (CLS) initiative, Department of Informatics, University of Oslo, Oslo, Norway ----------------------------------------------------------------------- From paolo.dm.romano at gmail.com Thu Apr 3 15:37:09 2014 From: paolo.dm.romano at gmail.com (Paolo Romano) Date: Thu, 03 Apr 2014 15:37:09 +0200 Subject: [SocBiN] NETTAB 2014 & Crystal (cl)Year 2014, October 16-17, 2014, Torino, Italy Message-ID: <533D6405.1040008@gmail.com> Dear SocBiN members, in the hope that it can be of your interest, I'm sending you some information on next NETTAB 2014 workshop and its joint meeting "2014: Crystal (cl)Year". As you will see, the workshop will be held in Torino, quite near to the French border indeed, from October 16 to 17, 2014, at the Molecular Biotechnology Center (MBC) of the local University. The main theme of the NETTAB 2014 is "From high-throughput structural bioinformatics to integrative systems biology". Main topics relate to methods, tools, applications, and perspectives on structural bioinformatics, proteomics and integrative systems biology. We have already agreed with BMC for the post workshop publication of two supplements of BMC Bioinformatics and of BMC Systems Biology including selected full papers from the workshop. A synthesis of the main information is reported here below. You will find the complete call for abstracts and much more information in the events' web sites: NETTAB 2014: http://www.nettab.org/2014/ CCY 2014: http://www.nettab.org/2014/CCY/ I hope you will be interested in submitting and attending. Please don't hesitate to ask for any further information. Best regards. Paolo Romano ===== NETTAB 2014 *From high-throughput structural bioinformatics to integrative systems biology* October 15-17, 2014, Molecular Biotechnology Center (MBC), Turin, Italy http://www.nettab.org/2014/ *Keynote Speakers* * Wolfgang Marwan, Otto-von-Guericke Universit?t, Magdeburg, Germany * Ram Samudrala, University of Washington, Seattle, USA * Torsten Schwede, University of Basel, Switzerland * Ada Yonath, Weizmann Institute of Science, Rehovot, Israel (Nobel Laureate) *Important dates* * Submission of abstracts for oral communications: July 21, 2014 * Submission of abstracts for posters: September 1, 2014 * Early registration deadline: July 31, 2014 *Instructions for abstract submission* Authors are invited to submit abstracts through EasyChair at: https://www.easychair.org/conferences/?conf=nettab2014 . Abstract length should not exceed 4 pages for oral communications and 2 pages for posters. Accepted abstracts will be printed in the conference proceedings. *Post-workshop publication* Two special issues will appear as supplements of BMC Bioinformatics and of BMC Systems Biology. The related Call for papers will be launched shortly after the workshop. *Chairs* Francesca Cordero (University of Torino, Italy) Paolo Romano (IRCCS AOU San Martino, Italy) Torsten Schwede (University of Basel, Switzerland) *Under the Patronage of* (confirmed only) * Italian Society of Bioinformatics (BITS) * Rete Ligure di Bioinformatica (ReLiB) ==== *2014: Crystal (cl)Year* October 16-17, 2014, Molecular Biotechnology Center (MBC), Turin, Italy http://www.nettab.org/2014/CCY/ *Keynote Speakers* * Eddy Arnold, Rutgers University, USA * David Blake, NASA-AMES, USA * Brian K. Kobilka, Stanford University, USA (Nobel Laureate 2012) * Paul Steinhardt, Princeton University, USA * John Walker, MRC Cambridge, UK (Nobel Laureate 1997) * Ada Yonath, Weizmann Institute, IL (Nobel Laureate 2009) *Travel Grants or Free Registrations will be available for Young Scientists* *Under the Patronage of* * Italian Association of Crystallography (AIC) * European Crystallographic Association (ECA) * International Union of Crystallography (IUCr) -- Paolo Romano Bioinformatics Lab, Biopolimers and Proteomics Service IRCCS AOU San Martino IST, Genova, Italy Email: paolo.dm.romano at gmail.com From Erik.Bongcam at slu.se Thu Apr 10 14:51:40 2014 From: Erik.Bongcam at slu.se (Erik Bongcam-Rudloff) Date: Thu, 10 Apr 2014 12:51:40 +0000 Subject: [SocBiN] Workshop on Big Data and Tutorial: Comparative genome annotation methods Message-ID: Dear all, Please distribute among your colleagues: ALLBIO and SeqAhead Workshop: Managing Big Data Setting the standards for analysing and integrating big data 28-29 April 2014 Add on program: Tutorial Comparative genome annotation methods 29-30 April Venue: University of Potsdam, Campus Golm Karl-Liebknecht-Str. 24-25 House 25 Room D 002 (computer pool) GERMANY All costs reimbursed if accepted by the organising committee: For application and travel grants please send a short letter of motivation to: plantsys at uni-potsdam.de More information attached: -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: Managing_Big_Data.pdf Type: application/pdf Size: 224000 bytes Desc: Managing_Big_Data.pdf URL: From lionel.guy at icm.uu.se Sun Apr 13 10:44:32 2014 From: lionel.guy at icm.uu.se (Lionel Guy) Date: Sun, 13 Apr 2014 10:44:32 +0200 Subject: [SocBiN] Bioinformatics specialist/Scientific programmer - Uppsala University - microbial genomics and evolution Message-ID: Dear colleagues, A permanent position as Bioinformatics specialist/Scientific programmer is available in Thijs Ettema's lab, Cell and Molecular Biology, Uppsala University. Applications here: http://www.uu.se/en/jobs/jobs-detail-page/?positionId=36221 We are looking for: A Bioinformatics specialist or Scientific programmer that will work at the lab of Thijs Ettema at the Department for Cell- and Molecular biology, Uppsala University. The position is permanent with a 6-month probationary period beginning June 1st or by appointment. The Ettema-lab: cutting edge research in microbial and evolutionary genomics Prof. Ettema?s lab is applying emerging genomics technologies to analyze microorganisms that defy cultivation under laboratory conditions. These organisms are predicted to comprise up to 99% of all microbes on our planet. By combining such cultivation-independent methods, such as single cell genomics and metagenomics, with next-generation sequencing-based analyses, the Ettema lab aims to study uncultured microorganisms (?microbial dark matter?) at the genomic level. Such studies will paint a detailed picture of the overall diversity and origin of life on our planet, and will eventually also reveal important clues about how complex life emerged. For more information, please see: http://www.ettemalab.org/ The Ettema-lab is located at the Biomedical Center (BMC) and will enter brand-new office spaces and a fully equipped genomics lab during the autumn of 2014. Moreover, the lab is well connected to several technology platforms of the SciLifeLab, including platform-based services for next-generation-sequencing, computational support and bioinformatics. We are also actively engaged in a new SciLifeLab platform for single cell genomics (http://www.scilifelab.se/facilities/single-cell/). The research activities in the Ettema-lab are supported by a number of prestigious grants, such as the European Research Council, the Foundation for Strategic Research and the Swedish Research Council. Job assignment: We are now looking for an experienced bioinformatician that will provide computational support to ongoing research projects within the Ettema lab. The successful candidate will have the following tasks: ? In collaboration with the researchers of the lab, design and perform bioinformatics analysis in molecular evolution, phylogenomics, sequence analysis and metagenomics, among others. ? Set up and maintain pipelines for the assembly, annotation and analysis of large-scale genome and metagenome sequencing datasets; set up and maintain databases for comparative and evolutionary studies of uncultivated microorganisms. ? System administration of the existing local computational infrastructure (server, workstations) and accounts (about 5% of the time). Potentially, the successful candidate might be asked to develop novel bioinformatics applications. Qualifications: Requirements: ? A PhD or similar research experience in bioinformatics and genomics (within academia or industry). ? Extensive experience with the analysis of next-generation sequencing datasets. ? Demonstrated experience working in a Linux environment and fluency in at least one programming or scripting language (bash, Perl, python, R, etc.). ? Fluent oral and written communication in English. Personal qualities: ? Strong sense of organization ? Ability to work in cooperation with academic researchers ? Excellent communication skills ? Pedagogic skills to teach researchers with limited bioinformatics experience ? Ability to work independently Merits: ? Postdoctoral studies in a related field. ? Experience of development and applications of bioinformatics and/or biostatistics methodologies or pipelines for design and analysis of large-scale sequencing datasets (e.g. Galaxy) ? Experience of system administration The positions are permanent with a 6-months trial period. The positions will be placed in the Ettema lab at the Department for Cell and Molecular Biology, Uppsala University. For further details about the position, please contact Thijs Ettema: thijs.ettema at icm.uu.se, +46 18 471 45 21. For more information about the activities in the Ettema-lab, please see http://www.ettemalab.org/ Application: Please send your application marked with ref.nr UFV-PA 2014/1062 as soon as possible, but no later than 2014-04-30. -- Lionel Guy Molecular Evolution, Uppsala University, Uppsala, Sweden postal address: Box 596, SE-751 24 Uppsala; visiting address: BMC B7:213e, Husargatan 3, SE-752 37 Uppsala phone: +46 18 471 6129, mobile +46 73 976 0618 lionel.guy at icm.uu.se From bpn at ifm.liu.se Mon Apr 14 09:42:51 2014 From: bpn at ifm.liu.se (Bengt Persson) Date: Mon, 14 Apr 2014 09:42:51 +0200 Subject: [SocBiN] Bioinformatics position in Uppsala, Sweden In-Reply-To: <74F1003E-B392-4FE3-8098-1C59CD354DA3@bils.se> References: <74F1003E-B392-4FE3-8098-1C59CD354DA3@bils.se> Message-ID: <534B917B.6030809@ifm.liu.se> Forwarded message: Dear all, we now have an advertisement out for a new position in Uppsala. This new expert will only work with transcriptomics. http://www.uu.se/en/jobs/jobs-detail-page/?positionId=36290 It would be great if you please could help to spread the word about this. The position is permanent and closing date for applications is on th 12th of May. /Henrik From arne at bioinfo.se Wed Apr 16 13:56:08 2014 From: arne at bioinfo.se (Arne Elofsson) Date: Wed, 16 Apr 2014 13:56:08 +0200 Subject: [SocBiN] Fwd: Assistant professor position in Bioinformatics and Computational Biology at SciLifeLab in Stockholm In-Reply-To: References: Message-ID: An assistant professor position in Bioinformatics and Computational Biology with emphasis on large-scale data analysis is open at SciLifeLab and KTH. The position is focused on Algorithm Design and Machine Learning applied to large-scale experimental datasets generated in genomics, transcriptomics, and proteomics. Here Machine Learning refers to Statistical Machine Learning and Bayesian methodologies. The position involves research and approximately 25% teaching. It belongs to the Department of Computational Biology (CB) at the School of Computer Science and Communication (CSC) at KTH but the assistant professor will be located at SciLifeLab. Science for Life Laboratory (SciLifeLab) is a national center for molecular biosciences with focus on health and environmental research. The center combines frontline technical expertise with advanced knowledge of translational medicine and molecular bioscience. SciLifeLab is a national resource and a collaboration between four universities: Karolinska Institutet, KTH Royal Institute of Technology, Stockholm University, and Uppsala University. CB does research on mathematical modeling of biological systems and on developing algorithms and software for simulating biological functions and analyzing biological data. CSC is one of Sweden's most advanced and successful research and education institutions in Information Technology. For more information see http://www.kth.se/en/om/work-at-kth/vacancies/assistant-professor-in-bioinformatics-and-computational-biology-1.472477 or contact Professor Jens Lagergren (Phone: +46 8 524 814 96 Email: jensl at csc.kth.se). -------------- next part -------------- An HTML attachment was scrubbed... URL: From jensl at csc.kth.se Wed Apr 16 13:32:53 2014 From: jensl at csc.kth.se (Jens Lagergren) Date: Wed, 16 Apr 2014 13:32:53 +0200 Subject: [SocBiN] Assistant professor position in Bioinformatics and Computational Biology at SciLifeLab in Stockholm Message-ID: An assistant professor position in Bioinformatics and Computational Biology with emphasis on large-scale data analysis is open at SciLifeLab and KTH. The position is focused on Algorithm Design and Machine Learning applied to large-scale experimental datasets generated in genomics, transcriptomics, and proteomics. Here Machine Learning refers to Statistical Machine Learning and Bayesian methodologies. The position involves research and approximately 25% teaching. It belongs to the Department of Computational Biology (CB) at the School of Computer Science and Communication (CSC) at KTH but the assistant professor will be located at SciLifeLab. Science for Life Laboratory (SciLifeLab) is a national center for molecular biosciences with focus on health and environmental research. The center combines frontline technical expertise with advanced knowledge of translational medicine and molecular bioscience. SciLifeLab is a national resource and a collaboration between four universities: Karolinska Institutet, KTH Royal Institute of Technology, Stockholm University, and Uppsala University. CB does research on mathematical modeling of biological systems and on developing algorithms and software for simulating biological functions and analyzing biological data. CSC is one of Sweden?s most advanced and successful research and education institutions in Information Technology. For more information see http://www.kth.se/en/om/work-at-kth/vacancies/assistant-professor-in-bioinformatics-and-computational-biology-1.472477 or contact Professor Jens Lagergren (Phone: +46 8 524 814 96 Email: jensl at csc.kth.se). -------------- next part -------------- An HTML attachment was scrubbed... URL: From albin at binf.ku.dk Thu Apr 24 13:15:17 2014 From: albin at binf.ku.dk (Albin Sandelin) Date: Thu, 24 Apr 2014 13:15:17 +0200 Subject: [SocBiN] Fwd: Postdoc and grad student positions available References: Message-ID: > > > ---------- Forwarded message ---------- > From: Eivind Valen > Date: Wednesday, April 23, 2014 > Subject: Postdoc and grad student positions available > To: Eivind Valen > > > Dear colleagues, > > I will start my lab at the University of Bergen in the fall and I am currently looking for talented postdocs and grad students. Initially, I have 3 positions to fill and I would be very grateful if you can help me spread this to potential candidates. The group will be dedicated to the fundamental question of how transcription and translation is integrated, but will also address other topics in RNA biology. > > The lab is looking to recruit people from both the computational and experimental side of biology who will be working closely together. The applicants will be working with NGS techniques such as ribosome profiling and RNA-Seq as well as CRISPR/Cas9 genome engineering to elucidate the regulation of translation and transcription during zebrafish embryogenesis. > > Currently, only one positions is posted at the link below. Note the short deadline! Applicants for the computational positions or that for some reason is unable to meet the deadline are encouraged to contact me directly. > > http://www.jobbnorge.no/en/available-jobs/job/101712/postdoctoral-fellow-in-molecular-biology > > Additional information can be obtained by contacting me at eivind.valen at gmail.com. > > > Eivind Valen > > -- > Eivind Valen > Postdoctoral Fellow, Schier lab > Department of Molecular and Cellular Biology, Harvard University > Lab phone: +1 617-496-4910 > > > > -- > ------------------------------------------- > Albin Sandelin, Professor, Ph.D. > > The Bioinformatics Centre > University of Copenhagen > > Room 1.3.20 > Ole Maaloes vej 5 > DK-2200 Copenhagen N, Denmark > E-mail: albin at binf.ku.dk, albin.sandelin at gmail.com > phone(work): +45 353 21285 > -------------- next part -------------- An HTML attachment was scrubbed... URL: From coordinator at rth.dk Thu Apr 24 14:56:10 2014 From: coordinator at rth.dk (Betina Wingreen) Date: Thu, 24 Apr 2014 14:56:10 +0200 Subject: [SocBiN] Extended deadline PhD Fellowship in Computational RNA Biology Message-ID: <000001cf5fbc$91129c00$b337d400$@rth.dk> Dear Friends and Colleagues, We have extended the application deadline until 8th May 2014 for our PhD Fellowship in Computational RNA Biology. Please pass this email on to qualified students and people who can distribute it further. For a full posting please see the attached pdf or go to http://www.offentlige-stillinger.dk/sites/cfml/kbhuni/kbhuniVis.cfm?plugin=1 &englishJobs=NO&nJobNo=216622&nLangNo=1 Best wishes, Betina -- Betina Wingreen Jensen Scientific and Administrative Coordinator Center for non-coding RNA in Technology and Health Department of Veterinary Clinical and Medical Sciences University of Copenhagen Groennegaardsvej 3 1870 Frederiksberg C Denmark Phone: +4535334704 Mob: +4521510932 -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: PhDfellowshipinComputationalBiology.pdf Type: application/pdf Size: 55835 bytes Desc: not available URL: From chandan.pal at gu.se Sun Apr 27 08:21:42 2014 From: chandan.pal at gu.se (Chandan Pal) Date: Sun, 27 Apr 2014 06:21:42 +0000 Subject: [SocBiN] PhD student position Message-ID: <2DAA04CE438DBD4F9AF6402A60AF90920106F67B2B@gu-mbx04.ad.gumail.local> Hello everyone There is a PhD position available in Bioinformatics at Sahlgrenska Academy at the University of Gothenburg, Sweden. The project mainly focuses on the antibiotic resistance in environmental bacteria and human pathogens. We are looking for an excellent candidate with good knowledge of bioinformatics analyses of large-scale DNA sequencing data. The deadline for the application is 20th May. Please spread the info among your lab members and in your bioinformatics networks. For more details click the link below: http://www.gu.se/english/about_the_university/announcements-in-the-job-application-portal/?languageId=0&disableRedirect=true&id=19144&Dnr=611284&Type=E Cheers /Chandan ............................................................... Chandan Pal, PhD student Department of Infectious Diseases Institute of Biomedicine Sahlgrenska Academy at the University of Gothenburg Guldhedsgatan 10, Gothenburg, Sweden Office Tel: +46 (0) 31 342 4626 Mobile: +46 (0) 72 915 1121 Email: chandan.pal at gu.se Website: http://chandanpal.weebly.com -------------- next part -------------- An HTML attachment was scrubbed... URL: From arne at bioinfo.se Mon Apr 28 14:05:04 2014 From: arne at bioinfo.se (Arne Elofsson) Date: Mon, 28 Apr 2014 14:05:04 +0200 Subject: [SocBiN] PhD Position in Stockholm Message-ID: *Ref. No. SU FV-0963-14 Project title: Prediction of membrane protein complexes *Project leader: Arne Elofsson, arne at bioinfo.se, 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 proteins. We have in recent years developed a number of state of the art prediction tools (SPOCTOPUS, SCAMPI etc) for membrane proteins as well as studied structural and evolutionary features of these. Our ultimate goal is to develop method that can be used to predict the structure of membrane proteins and in particular of large molecular complexes such as the TOM complex responsible for proteins import into the mitochondria. To obtain these goals we are combining experimental and theoretical studies in close collaboration. This position is for the theoretical part of the project. Here we combine different machine learning techniques (SVM, ANN, HMMs) with biological knowledge in innovative ways. 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. Please include the email address of two references, examples of source code you have written and a description of why you think my research is of interest to you. For a full list of publication see http://bioinfo.se/papers/ Publications: 1) Contreras, F.X., Ernst, A.M., Haberkant, P., Bjorkholm, P., Lindahl, E., Gonen, B., Tischer, C., Elofsson, A., von Heijne, G., Thiele, C., Pepperkok, R., Wieland, F. and Brugger, B. (2012) Molecular recognition of a single sphingolipid species by a protein's transmembrane domain. Nature 481 (7382) : 525-529. 2) Hedin, L.E., Illergard, K. and Elofsson, A. (2011) An Introduction to Membrane Proteins (dagger). J Proteome Res 10 (8) : 3324-3331. 3) Hennerdal, A. and Elofsson, A. (2011) Rapid membrane protein topology prediction. Bioinformatics 27 (9) : 1322-1323. 4) 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. To the application form for this position Yours Arne ----------------------------------------- Arne Elofsson Science for Life Laboratory Tel:+46-(0)852481531 Stockholm University http://bioinfo.se/ Box 1031, Email: arne at bioinfo.se 17121 Solna, Sweden Twitter: https://twitter.com/arneelof Scholar: http://scholar.google.se/citations?user=s3OCM3AAAAAJ ORCID: 0000-0002-7115-9751 -------------- next part -------------- An HTML attachment was scrubbed... URL: From Erik.Bongcam at slu.se Wed Apr 30 13:22:15 2014 From: Erik.Bongcam at slu.se (Erik Bongcam-Rudloff) Date: Wed, 30 Apr 2014 11:22:15 +0000 Subject: [SocBiN] ALLBIO Conference: Plants, Animal and Microbial Bioinformatics Message-ID: Dear SocBin, Attached information about a great Conference in Florence Italy next 11-13 June 2014. Selected participants will be reimbursed. This is a very practical and solution creating conference and the project will present and discuss bioinformatics solutions and challenges in the fields of Animal, Plants and Microbial research. Welcomed Erik -------------- next part -------------- A non-text attachment was scrubbed... Name: flyer.pdf Type: application/pdf Size: 3053128 bytes Desc: flyer.pdf URL: