From cstorm at birc.au.dk Mon Feb 2 11:44:51 2015 From: cstorm at birc.au.dk (Christian Storm Pedersen) Date: Mon, 2 Feb 2015 10:44:51 +0000 Subject: [SocBiN] Associate Professor in bioinformatics at Aarhus University Message-ID: <2A90BA46-5804-4889-885A-B5BC6853B98E@birc.au.dk> Dear all, We have an open position as associate professor in bioinformatics at the Bioinformatics Research Center (BiRC), Aarhus University, Denmark: http://scitech.au.dk/en/about-science-and-technology/vacant-positions/scientific-positions/?tx_peoplexs_pi1%5Bid%5D=705456&tx_peoplexs_pi1%5BportalId%5D=5283&tx_peoplexs_pi1%5Baction%5D=show&tx_peoplexs_pi1%5Bcontroller%5D=Vacancy&cHash=7203efbbfde1b71c174f43866d7aacfa Application deadline is March 1. Please forward to anybody who might be interested. Regards, Christian -- Christian N?rgaard Storm Pedersen Director, Bioinformatics Research Centre (BiRC), Aarhus University http://www.birc.au.dk/~cstorm From antti.honkela at cs.helsinki.fi Tue Feb 3 09:33:39 2015 From: antti.honkela at cs.helsinki.fi (Antti Honkela) Date: Tue, 03 Feb 2015 10:33:39 +0200 Subject: [SocBiN] MASAMB 2015 call for abstracts and participation Message-ID: <54D087E3.2040408@cs.helsinki.fi> Mathematical and Statistical Aspects of Molecular Biology 25th annual MASAMB workshop Helsinki, Finland 16-17 April 2015 *** Call for abstracts and participation *** The 25th annual MASAMB workshop will be held on 16-17 April 2015 at the University of Helsinki, Finland The deadline for abstract submissions for talks is 25 February 2015. The late abstract submission deadline (posters only) is 23 March 2015. More details may be found at http://masamb2015.hiit.fi Please feel free to forward this email to your fellow colleagues. *** MASAMB *** Bioinformatics and statistical genetics, twin themes of the long-running series of annual MASAMB meetings, have gained huge impetus from large-scale genome sequencing projects and development of high-throughput biological assay systems, including gene-expression microarrays, high-throughput sequencing, proteomic and metabolomic technologies. These immense data resources, and the underlying complexities of molecular and cell biology, provide exciting research opportunities for numerate scientists. With typically around 80-120 participants from mathematics, statistics, computer science, bioinformatics, biology and related fields, MASAMB meetings provide an intimate setting for exchange of ideas in methodological and applied research. Research students and scientists newly entering the field of genomic research are particularly welcome. MASAMB 2015 will be held at the University of Helsinki in the centre of Helsinki, right next door from the Helsinki Cathedral. This year's meeting is the third of the series to be held outside the British Isles. *** Topics *** Analysis and Inference of Biological Networks Bioinformatics and Functional Genomics High-throughput sequencing Phylogenies and Evolution Statistics for personalised medicine Systems Biology Synthetic Biology *** Important dates *** Registration / abstract submission open: 3 February 2015 Abstract submission for talks deadline: 25 February 2015 Author notifications: 18 March 2015 Late abstract submission for posters deadline: 23 March 2015 Late submission notifications deadline: 25 March 2015 Registration deadline: 26 March 2015 Conference: 16-17 April 2015 We look forward to seeing you in Helsinki! Antti Honkela and Samuel Kaski From arne at bioinfo.se Tue Feb 3 15:05:27 2015 From: arne at bioinfo.se (Arne Elofsson) Date: Tue, 3 Feb 2015 15:05:27 +0100 Subject: [SocBiN] Postdoc position Message-ID: *Postdoc position in Structural Characterization of the Sec Translocon machinery*. Daniel Daley and Arne Elofsson, DBB and SciLifeLab Stockholm University A post-doc position is immediately available in membrane biochemistry and structural biology. The position aims to understand how proteins are inserted into cellular membrane by the Sec translocon. The project will endeavor to trap substrate proteins during the insertion process and determining which ancillary modules and chaperones are recruited. Downstream analysis will include mass spectrometry and cryo-EM. The ultimate goal is to provide novel structural information about the machinery by combining this experimental information with structural modeling. The initial part of the project will be performed in the Daley lab at DBB and the cryo-EM will be done at the new facility at Stockholm University /SciLife. The position is funded by a grant from the University to DD and AE. The position is a two-year postdoc position with a full salary. Regulations at the University limit this position to researchers with a PhD not older than three years. Applicants should possess a PhD in Biochemistry or a related discipline, and be proficient with standard molecular methods such as cloning and protein purification. A high level of motivation and good communication skills are required. The position will be a joint appointment between the SciLife Lab Stockholm and The Department of Biochemistry and Biophysics at Stockholm University. More information, as well as applications, can be sent to Professor Arne Elofsson (arne at bioinfo.se) or Associate Professor Daniel Daley (ddaley at dbb.su.se). Please include a cover letter, CV and the email address of at least two references. 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 krogh at binf.ku.dk Fri Feb 6 09:09:15 2015 From: krogh at binf.ku.dk (Anders Krogh) Date: Fri, 06 Feb 2015 09:09:15 +0100 Subject: [SocBiN] Postdoctoral Fellowships in Bioinformatics Message-ID: <54D476AB.6060406@binf.ku.dk> I am looking for two postdocs. Please see: http://employment.ku.dk/faculty/?show=714605 Deadline is March 1st Please forward if you know some excellent candidates. Thanks, -- Anders Krogh Professor krogh at binf.ku.dk - The Bioinformatics Centre Dept of Biology, University of Copenhagen Ole Maaloes Vej 5, 2200 Copenhagen, Denmark Ph. +45 3532 1329 Dept +45 3532 3710 www.binf.ku.dk From rune.linding at gmail.com Sun Feb 8 20:12:21 2015 From: rune.linding at gmail.com (Rune Linding) Date: Sun, 8 Feb 2015 20:12:21 +0100 Subject: [SocBiN] Fwd: FW: Post docposition available, Please inform possible candidates In-Reply-To: <05da2a99fa444c058ca9621db0c38056@mail-ex02.exprod.uio.no> References: <05da2a99fa444c058ca9621db0c38056@mail-ex02.exprod.uio.no> Message-ID: ---------- Forwarded message ---------- From: Anne-Lise B?rresen-Dale Date: Sun, Feb 8, 2015 at 8:09 PM Subject: FW: Post docposition available, Please inform possible candidates To: Rune Linding *Postdoctoral research fellow in biostatistics/bioinformatics * Position as postdoctoral fellow available for three years at Department of Genetics, Institute for Cancer Research, Norwegian Radium Hospital, Oslo, Norway *Research environment * Institute for Cancer Research has since its foundation in 1954 played a central role within the field of cancer research both in Norway as well as internationally. The Institute has six research departments, a core facility and more than 320 employees, master students included. About 70% of the employees and projects are externally funded. Department of Genetics consists of four major research groups which include five project groups. The department is headed by Professor Anne-Lise B?rresen-Dale, who is also leading a K.G. JebsenCenter for Breast Cancer Research. The main research area of the department is on molecular biology and functional genomics of breast cancer to understand breast cancer progression and identify prognostic and predictive markers. In addition, one group is focusing on lung and pancreatic cancer. The department possesses large bio-banks of human tumor and blood samples and has long standing expertise in genome-wide technologies for the analysis of DNA, RNA and proteins. http://www.ous-research.no/genetics/ Oslo centre for biostatistics and epidemiology (OCBE) includes staff from University of Oslo and Oslo University Hospital and includes several professors, researchers, post-doctoral fellows and PhD students, making up a group of about 50. OCBE is internationally recognized, with interests spanning a broad range of areas of modern statistics and numerous collaborations with leading bio-medical research groups nationally and internationally. OCBE will have a major role in the recently funded prestigious centre for research-based innovation Big Insight, a consortium of academic, industrial and public partners. Big Insight will develop original statistical and machine learning methodologies and deep analytical tools to extract knowledge from complex and big data, with focus on two central themes: novel personalized solutions and sharper predictions of transient dynamics. *Project information * The post doctoral project is centered on development and progression of breast cancer using large scale genomic data from human tumor samples and mouse models. Such data include gene expression, copy number (SNP) and methylation data from microarray analysis of tumor samples ranging from benign lesions to invasive breast cancer, as well as targeted and exome sequencing data. The aim is to increase our understanding of how breast lesions develop and progress from the pre-invasive state and to the more aggressive invasive tumor stages and to identify markers of potentially clinical usefulness. The appointed candidate will be working in the group headed by Dr. Therese S?rlie, http://www.ousresearch.no/sorlie/ . Co-supervisor will be Professor Arnoldo Frigessi, (OCBE) http://www.med.uio.no/imb/english/people/aca/frigessi/. In addition to own projects, the candidate is expected to supervise and contribute in the projects of other group members. *Required professional and personal skills * The candidate must have a PhD in statistics, mathematics, bioinformatics or other relevant science with a significant and documented competence in biostatistics. Experience with genomics data is necessary. The candidate must have full proficiency with some statistical software and language like R or plink. Knowledge of programming languages like C or Python is an advantage, but not necessary. Competence and/or experience with high dimensional data, multiple comparison, and dimension reduction is also an advantage. We are looking for a young researcher who has the interest in both developing new methods and analysis pipelines for high dimensional data and applying state of the art methods. The candidate is expected to work together with other scientists in a team. We will welcome a highly motivated and dedicated candidate, with the ability to work independently, but with good communication skills and who performs well in a team. Proficiency in the English language is a prerequisite. *We offer * A challenging and friendly working environment Favorable pension arrangement Attractive welfare arrangements Salary NOK 491 000 - 530 000 p. y. depending on qualifications *Application should include: * Cover letter including motivation for the position CV (summarizing education, positions and academic work) Copies of educational certificates (PhD diploma) and letters of recommendation List of publications and academic work that the applicant wishes to be considered Contact information for two references Foreign applicants should be prepared to provide an explanation of their diploma if needed. Please note that all documents should be in English or a Scandinavian language. According to the Norwegian Freedom of Information Act (offentleglova) information about the applicant may be included in the public applicant list. *Application deadline: 15.03.2015 * Project start: July 2015 Contacts: Principal investigator: Therese S?rlie, tsorlie at rr-research.no, tel. +47 22781364, Co-supervisor Arnoldo Frigessi: arnoldo.frigessi at medisin.uio.no Administrative coordinator: Gry Geitvik, gryge at rr-research.no, TEL. +47 22781374 -------------- next part -------------- An HTML attachment was scrubbed... URL: From bjorn.nystedt at scilifelab.se Mon Feb 9 14:06:58 2015 From: bjorn.nystedt at scilifelab.se (=?iso-8859-1?Q?Bj=F6rn_Nystedt?=) Date: Mon, 9 Feb 2015 14:06:58 +0100 Subject: [SocBiN] Six permanent positions providing advanced bioinformatics support Message-ID: Call for interest: Six (6) permanent positions providing advanced bioinformatics support, located at SciLifeLab Bioinformatics Platform nodes across Sweden. The bioinformatics platform at SciLifeLab 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), preferably placed at bioinformatics nodes in Ume?, Link?ping, Gothenburg, or Lund. Together with other national bioinformatics staff, the new recruits will aid the build-up of the national platform by establishing local platform nodes. The successful candidates have a PhD or similar relevant working experience from advanced studies within bioinformatics. We are looking for candidates experienced in providing analyses, software solutions, database design and/or user interfaces in areas like whole genome variant discovery, statistical genetics, population genetics, transcriptomics, proteomics, metabolomics, systems biology and integrative bioinformatics Note that the formal recruit process at the respective university will be started once this call for interest has been evaluated. The deadline for this call is February 27th 2015 More info: http://www.scilifelab.se/wp-content/uploads/2013/09/SciLifeLabBioinformaticsPositions2015KAWCallForInterest1.pdf Contact: Thomas Svensson, thomas.svensson at scilifelab.se Bj?rn Nystedt, bjorn.nystedt at scilifelab.se 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 ljj at cbs.dtu.dk Tue Feb 10 17:55:39 2015 From: ljj at cbs.dtu.dk (Lars Juhl Jensen) Date: Tue, 10 Feb 2015 17:55:39 +0100 Subject: [SocBiN] Fwd: Recruiting Postdocs and Graduate Students In-Reply-To: References: Message-ID: Postdocs and Graduate Students in Computational Biology The Friedberg Lab http://iddo-friedberg.net is recruiting postdoctoral fellows and graduate students to several newly funded projects. The lab is relocating to Iowa State University in Ames, Iowa as part of a university-wide Big Data initiative. Iowa State is a large research university with world-leading computational resources, and a strong highly collaborative community of bioengineering, bioinformaticians, and life science researchers. The successful candidates will be joining the lab at the College of Veterinary Medicine, Department of Veterinary Microbiology. Areas of interest include: bacterial genome evolution, gene and protein function prediction, microbial genome mining, animal and human microbiome, and biological database analysis. These are bioinformatics positions, and the successful applicants would be required to perform research employing computational biology skills. The Friedberg lab is a computational biology lab equipped with high-end cluster computers and bioinformatics support. Requirements for postdocs: A PhD in microbiology, bioinformatics, or a related field. A strong publication record in peer-reviewed journals. Strong programming skills; strong oral and written communication skills in English; Strong domain knowledge of molecular biology. Salary is competitive and commensurate with experience. Graduate students: we are looking for independent, hard-working problem-solving, energetic and motivated scientist-to-be. You have graduated or are about to graduate in computer science and/or biology or related fields. The Friedberg Lab is a "dry" lab, so some programming skills are required. Ames, Iowa is consistently ranked as one of the best places to live in the US, and has received numerous awards for being a progressive, innovative and exciting community with high affordability and high quality of life. Candidates should send a C.V. and statement of interest as one PDF document, and have three letters of reference sent independently by their authors to Dr. Iddo Friedberg at Friedberg.Lab.Jobs "at" gmail dot com. Screening of applications begins immediately and will continue until the positions are filled. The positions are expected to start on or after June 2015. Graduate students are encouraged to apply via Iowa State University's BCB program: http://www.bcb.iastate.edu/ However, other programs may be applicable. All offers of employment, oral and written, are contingent upon the university's verification of credentials and other information required by federal and state law, ISU policies/procedures, and may include the completion of a background check. Iowa State University is an Equal Opportunity/Affirmative Action employer. All qualified applicants will receive consideration for employment without regard to race, color, age, religion, sex, sexual orientation, gender identity, genetic information, national origin, marital status, disability, or protected veteran status, and will not be discriminated against. Inquiries can be directed to the Director of Equal Opportunity, 3350 Beardshear Hall, (515) 294-7612 -- Iddo Friedberg http://iddo-friedberg.net/contact.html ++++++++++[>+++>++++++>++++++++>++++++++++>+++++++++++<<<<<-]>>>>++++.> ++++++..----.<<<<++++++++++++++++++++++++++++.-----------..>>>+.-----. .>-.<<<<--.>>>++.>+++.<+++.----.-.<++++++++++++++++++.>+.>.<++.<<<+.>> >>----.<--.>++++++.<<<<------------------------------------. From info at mario-albrecht.de Fri Feb 13 17:41:10 2015 From: info at mario-albrecht.de (Mario Albrecht) Date: Fri, 13 Feb 2015 17:41:10 +0100 Subject: [SocBiN] PhD or Postdoc in Bioinformatics Message-ID: <54DE2926.8050003@mario-albrecht.de> Open PhD and Postdoc positions in Bioinformatics Deadline: 28 February 2015 Contact: Prof. Dr. Mario Albrecht, Institute for Knowledge Discovery, Graz University of Technology, Graz, Austria, info at mario-albrecht.at Find further information on the open PhD and Postdoc bioinformatics positions at http://www.medbioinf.at and below! Note: Please send your application to info at mario-albrecht.at as well! Please forward this mail to your colleagues, thank you! Open full-time bioinformatics PhD student position for molecular network research until 28 February 2015, for details see http://mibla.tugraz.at/14_15/Stk_8/8.html#112 and as follows: Molecular networks and proteins are involved in many biological processes. Therefore, we aim at the development and application of computational network methods for the analysis and prediction of molecular interactions and their structural and functional changes due to sequence mutations. The mutations might occur in disease genes or bacterial and viral genomes. Based on the analysis results, we also want to develop innovative bioinformatics approaches for modeling pathways and their changes as well as for the design and prioritization of follow-up experiments. Open full-time bioinformatics postdoc position for integrative omics research until 28 February 2015, for details see http://bioinf.tugraz.at/images/Postdoc.pdf and as follows: Cancer is the leading cause of death and involves altered lipid metabolism. The rate-limiting enzyme in triacylglyceride degradation, the adipose triglyceride lipase (ATGL), might not participate only in lipid mobilization and degradation, but also in signaling pathways by generating lipid signaling molecules. Therefore, we aim at the large-scale elucidation of the functional role of ATGL in cancer progression using different omics strategies combined with computational approaches. Novel bioinformatics methods are developed for analyzing the data of molecular proteomics and metabolomics networks related to lipolysis in cancer. From arne at bioinfo.se Fri Feb 20 10:46:33 2015 From: arne at bioinfo.se (Arne Elofsson) Date: Fri, 20 Feb 2015 10:46:33 +0100 Subject: [SocBiN] Fwd: Marie Curie ITN project "ProteinFactory"; 15 ESR positions available In-Reply-To: References: Message-ID: Dear colleagues, Hopefully all is going well for you! Recently, the Marie Curie ITN project "ProteinFactory" was selected for funding. My colleagues in the project and I are now looking for excellent candidates to fill 15 ESR positions in 7 different European countries. Could you please be so kind to forward the attached information to any potential candidates whom you deem suitable for a PhD position? This would be highly appreciated! -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: ProteinFactory_announcement PhD positions.pdf Type: application/pdf Size: 115902 bytes Desc: not available URL: From nicosia at dmi.unict.it Fri Feb 20 10:52:53 2015 From: nicosia at dmi.unict.it (Giuseppe Nicosia) Date: Fri, 20 Feb 2015 10:52:53 +0100 Subject: [SocBiN] Synthetic & Systems Biology Summer School, Taormina - Sicily, Italy July 5-9, 2015 Message-ID: <5F5C4DF2-C4AF-4309-9EF2-D8E01430D220@dmi.unict.it> ________________________________________ Call for Participation (apologies for multiple copies) ________________________________________ Synthetic and Systems Biology Summer School - 2nd Edition Taormina - Sicily, Italy, July 5-9, 2015 http://www.taosciences.it/ssbss2015/ ssbss.school at gmail.com *News: New Speaker! Ron Weiss, MIT, USA ** Deadlines ** Student Application: March 31, 2015 Oral/Poster Submission: March 31, 2015 ** List of Speakers ** * Adam Arkin, University of California Berkeley, USA * Jef Boeke, New York University, USA * Angela DePace, Harvard University, USA * Forbes Dewey, MIT, USA * Karmella Haynes, Arizona State University, USA * Richard Kitney, Imperial College London, UK * Timothy Lu, MIT, USA * Philip Maini, Oxford University, UK * Giancarlo Mauri, University of Milano - Bicocca, Italy * Steve Oliver, Cambridge University, UK * Velia Siciliano, MIT, USA * Ron Weiss, MIT, USA * Nicola Zamboni, ETH, Switzerland ** Industrial Panel ** * Jon D. Chesnut, Life Sciences Solutions Group -Thermo Fisher Scientific, USA * Carlos Olguin, Autodesk Inc., USA * Zach Serber, Zymergen, Inc. USA 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 ** Students 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 March 31, 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. -- 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 info at mario-albrecht.de Mon Feb 23 00:39:27 2015 From: info at mario-albrecht.de (Mario Albrecht) Date: Mon, 23 Feb 2015 00:39:27 +0100 Subject: [SocBiN] PhD or Postdoc in Bioinformatics Message-ID: <54EA68AF.80902@mario-albrecht.de> Dear colleagues, Please forward these bioinformatics job offers for PhD students and Postdocs to others, thank you much! Kind regards, Mario Albrecht ================================================ Open PhD and Postdoc positions in Bioinformatics ================================================ Deadline: 28 February 2015 Contact: Prof. Dr. Mario Albrecht, Institute for Knowledge Discovery, Graz University of Technology, Graz, Austria, info at mario-albrecht.at Further information at http://www.medbioinf.at and below! Note: Please send your application both to info at mario-albrecht.at and informatik at tugraz.at citing the reference number 7090/15/001. Open full-time paid bioinformatics PhD student position for molecular network research until 28 February 2015, for details see http://wwww.medbioinf.at and as follows: Molecular networks and proteins are involved in many biological processes. Therefore, we aim at the development and application of computational network methods for the analysis and prediction of molecular interactions and their structural and functional changes due to sequence mutations. The mutations might occur in disease genes or bacterial and viral genomes. Based on the analysis results, we also want to develop innovative bioinformatics approaches for modeling pathways and their changes as well as for the design and prioritization of follow-up experiments. Open full-time paid bioinformatics postdoc position for integrative omics research until 28 February 2015, for details see http://bioinf.tugraz.at/images/Postdoc.pdf and as follows: Cancer is the leading cause of death and involves altered lipid metabolism. The rate-limiting enzyme in triacylglyceride degradation, the adipose triglyceride lipase (ATGL), might not participate only in lipid mobilization and degradation, but also in signaling pathways by generating lipid signaling molecules. Therefore, we aim at the large-scale elucidation of the functional role of ATGL in cancer progression using different omics strategies combined with computational approaches. Novel bioinformatics methods are developed for analyzing the data of molecular proteomics and metabolomics networks related to lipolysis in cancer. ________________________________________________________ Prof. Dr. Mario Albrecht http://www.medbioinf.at Institute for Knowledge Discovery Head of Bioinformatics Graz University of Technology Inffeldgasse 13/IV, 8010 Graz, Austria ________________________________________________________