December 2015 - BBClist - maillist.psb.ugent.be

Master Internship opportunity at European Institute for Systems Biology and Medicine on omics data integration
by Bertrand 05 Jan '16

05 Jan '16

Dear all, We are offering a 6-months master student internship at the European Institute for Systems Biology and Medicine (EISBM) in Lyon,France, as part of the exploitation of the data generated during the U-BIOPRED severe asthma research project. The position will allow an intern to participate in the legacy of a state-of-the-art EU Systems Medicine project and the work conducted during the internship will lead to the publication of at least one high-level scientific article. We are looking for a master student with R and Bioconductor programming skills, a good background in biostatistics and good English level. Enthusiastic and motivated candidates are encouraged to contact Prof. Charles Auffray (jobs(a)eisbm.org) with a CV and a brief motivation letter, before December 15, 2015. Additional information can be found in the attached file. Please circulate this offer to anyone interested! Best regards, Bertrand De Meulder -- EISBM logo <http://www.eisbm.org> *Bertrand De Meulder Researcher * European Institute for Systems Biology and Medicine Campus Charles Mérieux - Université de Lyon CNRS - UCBL - ENS *E-mail:*bdemeulder@eisbm.org <mailto:bdemeulder@eisbm.org> *Office:* +33(0)4 37 28 74 41 *Office* Université Claude Bernard 3^e étage plot 2 50 Avenue Tony Garnier 69366 Lyon cedex 07 France *Laboratory* LyonBioPôle - Centre d'Infectiologie 2^e étage Bât. Domilyon 321 Avenue Jean Jaurès 69007 Lyon France Follow us : EISBM eisbm.org <http://www.eisbm.org> | Facebook Facebook <http://www.facebook.com/EISBM> | Twitter Twitter <http://twitter.com/EISBM_EU>

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AlCoB 2016: 3rd call for papers
by GRLMC 30 Dec '15

30 Dec '15

*To be removed from our mailing list, please respond to this message with UNSUBSCRIBE in the subject line* ************************************************************************************ 3RD INTERNATIONAL CONFERENCE ON ALGORITHMS FOR COMPUTATIONAL BIOLOGY ALCOB 2016 TRUJILLO, SPAIN JUNE 21-23, 2016 Organized by: Computer Architecture and Logic Design Group (ARCO) University of Extremadura Extremadura Centre for Advanced Technologies (CETA-Ciemat) Research Group on Mathematical Linguistics (GRLMC) Rovira i Virgili University http://grammars.grlmc.com/alcob2016/ ************************************************************************************ AIMS: AlCoB aims at promoting and displaying excellent research using string and graph algorithms and combinatorial optimization to deal with problems in biological sequence analysis, genome rearrangement, evolutionary trees, and structure prediction. Previous events were held in Tarragona (2014) and Mexico City (2015). The conference will address several of the current challenges in computational biology by investigating algorithms aimed at: 1) assembling sequence reads into a complete genome, 2) identifying gene structures in the genome, 3) recognizing regulatory motifs, 4) aligning nucleotides and comparing genomes, 5) reconstructing regulatory networks of genes, and 6) inferring the evolutionary phylogeny of species. Particular focus will be put on methodology and significant room will be reserved to young scholars at the beginning of their career. VENUE: AlCoB 2016 will take place in Trujillo, homeland of the so-called "conquistadores" who arrived in Peru in the XVI century. The venue will be the Extremadura Centre for Advanced Technologies. SCOPE: Topics of either theoretical or applied interest include, but are not limited to: Exact sequence analysis Approximate sequence analysis Pairwise sequence alignment Multiple sequence alignment Sequence assembly Genome rearrangement Regulatory motif finding Phylogeny reconstruction Phylogeny comparison Structure prediction Compressive genomics Proteomics: molecular pathways, interaction networks Transcriptomics: splicing variants, isoform inference and quantification, differential analysis Next-generation sequencing: population genomics, metagenomics, metatranscriptomics Microbiome analysis Systems biology STRUCTURE: AlCoB 2016 will consist of: invited lectures peer-reviewed contributions INVITED SPEAKERS: Evan Eichler (University of Washington, Seattle), De Novo Genome Assembly and Structural Variation S. Cenk Sahinalp (SimonFraserUniversity), Big Data Algorithmics for Cancer Genomics David Sankoff (University of Ottawa), The Evolution of Gene Order in the Flowering Plants PROGRAMME COMMITTEE: Can Alkan (Bilkent University, Ankara, Turkey) Timothy L. Bailey (University of Queensland, Brisbane, Australia) Vladimir Bajic (King Abdullah University of Science and Technology, Thuwal, Saudi Arabia) Geoff Barton (University of Dundee, UK) Inanc Birol (University of British Columbia, Vancouver, Canada) Jacek Błażewicz (PoznańUniversity of Technology, Poland) Alan P. Boyle (University of Michigan, Ann Arbor, USA) Vladimir Brusic (NazarbayevUniversity, Astana, Kazakhstan) Liming Cai (University of Georgia, Athens, USA) Rita Casadio (University of Bologna, Italy) Ken Chen (University of Texas MD AndersonCancerCenter, Houston, USA) Jason Ernst (University of California, Los Angeles, USA) Laurent Gautier (Novartis Institutes for BioMedical Research, Cambridge, USA) Manolo Gouy (ClaudeBernardUniversity Lyon 1, France) Michael Gribskov (PurdueUniversity, West Lafayette, USA) Iman Hajirasouliha (Stanford University, USA) John Hancock (Genome Analysis Centre, Norwich, UK) Artemis Hatzigeorgiou (University of Thessaly, Volos, Greece) Fereydoun Hormozdiari (University of California, Davis, USA) Kazutaka Katoh (Osaka University, Japan) Evangelos Kranakis (Carleton University, Ottawa, Canada) Lukasz Kurgan (University of Alberta, Edmonton, Canada) Bill Majoros (DukeUniversity, Durham, USA) Lennart Martens (Ghent University, Belgium) Maria-Jesus Martin (European Bioinformatics Institute, Hinxton, UK) Carlos Martín-Vide (Rovira i VirgiliUniversity, Tarragona, Spain, chair) Folker Meyer (Argonne National Laboratory, USA) Kenta Nakai (University of Tokyo, Japan) Matteo Pellegrini (University of California, Los Angeles, USA) Mihaela Pertea (JohnsHopkinsUniversity, Baltimore, USA) Ben Raphael (BrownUniversity, Providence, USA) Paolo Ribeca (Pirbright Institute, Woking, UK) Denis Shields (UniversityCollegeDublin, Ireland) Fredj Tekaia (Pasteur Institute, Paris, France) Alessandro Verri (University of Genova, Italy) Fuli Yu (BaylorCollege of Medicine, Houston, USA) Daniel Zerbino (European Bioinformatics Institute, Hinxton, UK) Kaizhong Zhang (University of WesternOntario, London, Canada) Weixiong Zhang (WashingtonUniversity in St. Louis, USA) Zhongming Zhao (VanderbiltUniversity, Nashville, USA) Yaoqi Zhou (GriffithUniversity, Brisbane, Australia) ORGANIZING COMMITTEE: María Botón-Fernández (Trujillo, co-chair) Carlos Martín-Vide (Tarragona, co-chair) Miguel A. Vega-Rodríguez (Cáceres, co-chair) Florentina Lilica Voicu (Tarragona) LOCAL COMMITTEE: Leslye Alarcón (Cáceres) María Botón-Fernández (Trujillo, co-chair) José M. Granado-Criado (Cáceres) Sergio Santander-Jiménez (Cáceres) Miguel A. Vega-Rodríguez (Cáceres, co-chair) SUBMISSIONS: Authors are invited to submit non-anonymized papers in English presenting original and unpublished research. Papers should not exceed 12 single-spaced pages (including eventual appendices, references, proofs, etc.) and should be prepared according to the standard format for Springer Verlag's LNCS series (see http://www.springer.com/computer/lncs?SGWID=0-164-6-793341-0) Submissions have to be uploaded to: https://www.easychair.org/conferences/?conf=alcob2016 PUBLICATIONS: A volume of proceedings published by Springer in the LNCS/LNBI series will be available by the time of the conference. A special issue of the journal IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB, 2014 JCR impact factor: 1.438, quartile Q1) will be later published containing peer-reviewed substantially extended versions of some of the papers contributed to the conference. Submissions to it will be by invitation. REGISTRATION: The period for registration is open from October 30, 2015 to June 21, 2016. The registration form can be found at: http://grammars.grlmc.com/alcob2016/Registration.php DEADLINES: Paper submission: January 26, 2016 (23:59 CET) Notification of paper acceptance or rejection: March 1, 2016 Final version of the paper for the LNCS/LNBI proceedings: March 15, 2016 Early registration: March 15, 2016 Late registration: June 7, 2016 Submission to the journal special issue: September 23, 2016 QUESTIONS AND FURTHER INFORMATION: florentinalilica.voicu (at) urv.cat POSTAL ADDRESS: AlCoB 2016 Research Group on Mathematical Linguistics (GRLMC) Rovira i Virgili University Av. Catalunya, 35 43002 Tarragona, Spain Phone: +34 977 559 543 Fax: +34 977 558 386 ACKNOWLEDGEMENTS: Centro Extremeño de Tecnologías Avanzadas (CETA-CIEMAT) Universidad de Extremadura Universitat Rovira i Virgili

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Reminder: ECCB 2016 Call for workshops/SIGS and tutorials
by Femke Francissen 29 Dec '15

29 Dec '15

*-------------------------------------------------------------------------------------------------------* *15th European Conference on Computational Biology (ECCB 2016)* *3-7 September 2016* World Forum Convention Center The Hague, The Netherlands Website: http://www.eccb2016.org/ ------------------------------------------------------------------------------------------------------- *Reminder: Call for workshops and tutorials* We would like to remind you that the call for workshops and tutorials at the ECCB 2016 is open. The workshops and tutorials are planned on September 3 and 4, 2016 in the World Forum in The Hague, immediately preceding the ECCB 2016. *Deadline for proposal submission is: January 13, 2016* *Workshops / SIGs* The workshops are expected to provide participants with an informal setting to discuss technical issues, exchange research ideas, and to share practical experiences on a range of focused or emerging topics in bioinformatics. SIGs are workshops organized by a special interest group. Each workshop should provide an interesting perspective on the cutting edge of a selected research field. Workshops may include any form of presentation such as talks or panel discussions. Read more <http://www.eccb2016.org/calls/workshops/> *Tutorials* The purpose of the tutorial program is to provide participants with lectures and hands-on training covering topics relevant to the field of bioinformatics. Each tutorial will offer participants an opportunity to learn about new areas of bioinformatics research, to get an introduction to important established topics, or to develop advanced skills in areas they are already familiar with. This call is an invitation for scientists and professionals working in the fields of bioinformatics and computational biology to submit proposals for high quality tutorials for ECCB 2016. Read more <http://www.eccb2016.org/calls/tutorials/> The conference is hosted by: BioSB research school <http://www.biosb.nl/>, Dutch Techcentre for Life Sciences <http://www.dtls.nl/> and co-organised by: Vrije Universiteit Amsterdam, Delft University of Technology Contact: info(a)eccb2016.org

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BigDat 2016: early registration deadline 8 January
by GRLMC 28 Dec '15

28 Dec '15

*To be removed from our mailing list, please respond to this message with UNSUBSCRIBE in the subject line* ******************************************************** 2ND INTERNATIONAL WINTER SCHOOLON BIG DATA BIGDAT 2016 BILBAO, SPAIN FEBRUARY 8-12, 2016 Organized by: DeustoTech, University of Deusto Rovira i VirgiliUniversity http://grammars.grlmc.com/bigdat2016/ ******************************************************** --- Early registration deadline: January 8, 2016 --- ******************************************************** AIM: BigDat 2016 will be a research training event addressed to graduates and postgraduates in the first steps of their academic career. With a global scope, it aims at updating them about the most recent advances in the critical and fast developing area of big data, which covers a large spectrum of current exciting research and industrial innovation with an extraordinary potential for a huge impact on scientific discoveries, medicine, engineering, business models, and society itself. Renowned academics and industry pioneers will lecture and share their views with the audience. Most big data subareas will be displayed, namely: foundations, infrastructure, management, search and mining, security and privacy, and applications. Main challenges of analytics, management and storage of big data will be identified through 4 keynote lectures, 19 six-hour courses, and 1 round table, which will tackle the most active and promising topics. The organizers are convinced that outstanding speakers will attract the brightest and most motivated students. Interaction will be a main component of the event. An open session will give participants the opportunity to present their own work in progress in 5 minutes. ADDRESSED TO: Graduates and postgraduates from around the world. There are no formal pre-requisites in terms of academic degrees. However, since there will be differences in the course levels, specific knowledge background may be assumed for some of them. BigDat 2016 is also appropriate for more senior people who want to keep themselves updated on recent developments and future trends. All will surely find it fruitful to listen and discuss with major researchers, industry leaders and innovators. REGIME: In addition to keynotes, 2-3 courses will run in parallel during the whole event. Participants will be able to freely choose the courses they will be willing to attend as well as to move from one to another. VENUE: BigDat 2016 will take place in Bilbao, the capital of the Basque Country region, famous for its gastronomy and the seat of the GuggenheimMuseum. The venue will be: DeustoTech, School of Engineering University of Deusto Avda. Universidades, 24 48014 Bilbao KEYNOTE SPEAKERS: Nektarios Benekos (European Organization for Nuclear Research), Role of Computing and Software in Particle Physics Chih-Jen Lin (NationalTaiwanUniversity), When and When Not to Use Distributed Machine Learning Jeffrey Ullman (StanfordUniversity), Theory of MapReduce Algorithms Alexandre Vaniachine (Argonne National Laboratory), Big Data Technologies and Data Science Methods in the Higgs Boson Discovery PROFESSORS AND COURSES: Nektarios Benekos (European Organization for Nuclear Research), [introductory/intermediate] Exploring the Mysteries of our Cosmos: the Big Deal between Big Data and Big Science Hendrik Blockeel (KU Leuven), [intermediate] Decision Trees for Big Data Analytics Edward Y. Chang (HTC Health, Taipei), [introductory/intermediate] Big Data Analytics for Healthcare: Scalable Algorithms and Applications Nello Cristianini (University of Bristol), [introductory] THINKBIG: Towards Large Scale Computational Social Sciences, History and Digital Humanities Ernesto Damiani (University of Milan & EBTIC/Khalifa University), [introductory/intermediate] Architectures, Models and Tools for Big-Data-as-a-Service Francisco Herrera (University of Granada), [introductory] Big Data Preprocessing George Karypis (University of Minnesota), [intermediate/advanced] Scaling Up Recommender Systems Chih-Jen Lin (NationalTaiwanUniversity), [introductory/intermediate] Large-scale Linear Classification Geoff McLachlan (University of Queensland), [intermediate/advanced] Big Data Extensions of Some Methods of Classification and Clustering Wladek Minor (University of Virginia), [introductory/intermediate] Big Data in Biomedical Sciences Raymond Ng (University of British Columbia), [introductory/intermediate] Mining and Summarizing Text Conversations Sankar K. Pal (Indian Statistical Institute), [introductory/advanced] Machine Intelligence and Granular Mining: Relevance to Big Data Erhard Rahm (University of Leipzig), [introductory/intermediate] Scalable and Privacy-preserving Data Integration Hanan Samet (University of Maryland), [introductory/intermediate] Sorting in Space: Multidimensional, Spatial, and Metric Data Structures for Applications in Spatial Databases, Geographic Information Systems (GIS), and Location-based Services Jaideep Srivastava (Qatar Computing Research Institute), [intermediate] Social Computing: Computing as an Integral Tool to Understanding Human Behavior and Solving Problems of Social Relevance Jeffrey Ullman (StanfordUniversity), [introductory] Big Data Algorithms that Aren't Machine Learning Alexandre Vaniachine (Argonne National Laboratory), [introductory/advanced] Big Data: Comparison with Computational Models Xiaowei Xu (University of Arkansas, Little Rock), [introductory/advanced] Big Data Analytics for Social Networks Mohammed J. Zaki (Rensselaer Polytechnic Institute), [introductory/intermediate] Large Scale Graph Analytics and Mining OPEN SESSION An open session will collect 5-minute presentations of work in progress by participants. They should submit a half-page abstract containing title, authors, and summary of the research to adrian.dediu (at) urv.cat by February 5, 2016. ORGANIZING COMMITTEE: Adrian Horia Dediu Carlos Martín-Vide (co-chair) Iker Pastor López (co-chair) Borja Sanz (co-chair) Florentina Lilica Voicu REGISTRATION: It has to be done at http://grammars.grlmc.com/bigdat2016/registration.php The selection of up to 8 courses requested in the registration template is only tentative and non-binding. For the sake of organization, it will be helpful to have an approximation of the respective demand for each course. Since the capacity of the venue is limited, registration requests will be processed on a first come first served basis. The registration period will be closed and the on-line registration facility disabled when the capacity of the venue will be complete. It is much recommended to register prior to the event. FEES: Participants are expected to attend full-time. Fees are a flat rate allowing the attendance to all courses during the week. There are several early registration deadlines. Fees depend on the registration deadline. ACCOMMODATION: Suggestions of accommodation are available on the webpage. CERTIFICATE: Participants will be delivered a certificate of attendance. QUESTIONS AND FURTHER INFORMATION: florentinalilica.voicu (at) urv.cat ACKNOWLEDGEMENTS: University of Deusto Rovira i Virgili University

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WebST 2016: early registration deadline 19 January
by GRLMC 25 Dec '15

25 Dec '15

*To be removed from our mailing list, please respond to this message with UNSUBSCRIBE in the subject line* ***************************************************************************** INTERNATIONAL SUMMER SCHOOL ON WEB SCIENCE AND TECHNOLOGY WEBST 2016 BILBAO, SPAIN JULY 18-22, 2016 Organized by: University of Deusto Rovira i VirgiliUniversity http://grammars.grlmc.com/webst2016/ ***************************************************************************** AIM: WebST 2016 is a research training event addressed to graduates and postgraduates in the first steps of their academic career. With a global scope, it aims at updating them about the most recent advances in the critical, multidisciplinary and fast developing area of web studies, which covers a large spectrum of current exciting research and industrial innovation from computing and technologies to social sciences and the humanities and has turned out to be the largest socio-technical infrastructure in human history. Renowned academics and industry pioneers will lecture and share their views with the audience. Most subareas of web science and technology will be displayed, namely: content analysis and information extraction, information networks, search, data and semantics, ontologies, user behavior and personalization, online communities, social networks, economic transactions, mobility, security and privacy, graph analysis, web mining and applications. Main challenges and opportunities will be identified through 4 keynote lectures, 20 six-hour courses, and 1 round table, which will tackle the most active and promising topics from various perspectives: philosophy, sociology, politics, digital humanities, economics, computer science, engineering and mathematics. The organizers believe outstanding speakers will attract the brightest and most motivated students. Interaction will be a main component of the event. Moreover, an open session will give participants the opportunity to present their own work in progress in 5 minutes. ADDRESSED TO: Graduates and postgraduates from around the world. There are no formal pre-requisites in terms of academic degrees. However, since there will be differences in the course levels, specific knowledge background may be assumed for some of them. WebST 2016 is also appropriate for more senior people who want to keep themselves updated on recent developments and future trends. All will surely find it fruitful to listen and discuss with major researchers, scholars, industry leaders and innovators. REGIME: In addition to keynotes, at least 2 courses will run in parallel during the whole event. Participants will be able to freely choose the courses they will be willing to attend as well as to move from one to another. VENUE: WebST 2016 will take place in Bilbao, the capital of the Basque Country region, famous for its gastronomy and the seat of the GuggenheimMuseum. The venue will be: DeustoTech, School of Engineering University of Deusto Avda. Universidades, 24 48014 Bilbao KEYNOTE SPEAKERS: (to be completed) Ricardo Baeza-Yates (Yahoo Labs), Big Data in the Web Jiawei Han (University of Illinois, Urbana-Champaign), From Data to Knowledge: A Data-to-Network-to-Knowledge (D2N2K) Paradigm Amit P. Sheth (WrightStateUniversity), Building Intelligent Systems: Semantic, Cognitive and Perceptual Computing to Exploit Physical-Cyber-Social Big Data PROFESSORS AND COURSES: (to be completed) Boualem Benatallah (University of New South Wales), [advanced] API Engineering and Management Vassilis Christophides (INRIA, Paris), [introductory/intermediate] Entity Resolution in the Web of Data Aldo Gangemi (Italian National Research Council, Rome), [intermediate/advanced] Open Knowledge Extraction: From Machine Reading to the Semantic Web Alon Halevy (Recruit Institute of Technology), [introductory] Structured Data on the Web Jiawei Han (University of Illinois, Urbana-Champaign), [intermediate] Construction and Mining of Text-Rich Heterogeneous Information Networks Andreas Hotho (University of Würzburg), [intermediate] Social Semantics in the Web Ravi Kumar (Google), tba Haewoon Kwak (Qatar Foundation), [introductory/intermediate] From Social Network Analysis to Social Media Analytics and beyond: Challenges and Opportunities Cathy Marshall (TexasA&MUniversity), [introductory] Qualitative Methods for Studying Users on the Web Mirco Musolesi (University College London), [introductory/intermediate] Mining Big (and Small) Mobile Data Bijan Parsia (University of Manchester), [introductory] The Semantic Web and Linked Data Prabhakar Raghavan (Google), tba Uli Sattler (University of Manchester), [introductory] OWL, Underlying Logics, and What This Reasoning Is All about Munindar P. Singh (North CarolinaStateUniversity), [introductory/intermediate] Web Applications as Sociotechnical Systems: A Basis for a Science of Security and Privacy Barry Smith (University at Buffalo), [introductory] Towards Ontological Foundations for Web Science Raphael Volz (Pforzheim University of Applied Science), [introductory] Improving Prediction Models with Open Data OPEN SESSION An open session will collect 5-minute presentations of work in progress by participants. They should submit a half-page abstract containing title, authors, and summary of the research to florentinalilica.voicu (at) urv.cat by July 15, 2016. ORGANIZING COMMITTEE: Carlos Martín-Vide (co-chair) Manuel Jesús Parra Royón Borja Sanz (co-chair) Florentina Lilica Voicu REGISTRATION: It has to be done at http://grammars.grlmc.com/webst2016/Registration.php The selection of up to 8 courses requested in the registration template is only tentative and non-binding. For the sake of organization, it will be helpful to have an approximation of the respective demand for each course. Since the capacity of the venue is limited, registration requests will be processed on a first come first served basis. The registration period will be closed and the on-line registration facility disabled when the capacity of the venue will be completed. It is much recommended to register prior to the event. FEES: Fees are a flat rate covering the attendance to all courses during the week. There are several early registration deadlines. Fees depend on the registration deadline. ACCOMMODATION: Suggestions of accommodation will be available on the webpage in due time. CERTIFICATE: Participants will be delivered a certificate of attendance. QUESTIONS AND FURTHER INFORMATION: florentinalilica.voicu (at) urv.cat ACKNOWLEDGEMENTS: University of Deusto Rovira i Virgili University

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Registration open: Course Essential skills in data-intensive research - enabling your life science research, 25-29 January 2016, Utrecht
by Celia.vanGelder＠radboudumc.nl 22 Dec '15

22 Dec '15

Course Essential skills in data-intensive research - enabling your life science research Date: 25-29 January 2016 Location: Surf<https://www.surf.nl/en/about-surf/contact/directions-to-surf-surfmarket-and…>, Utrecht Website including registration: https://www.surf.nl/en/agenda/2016/01/essential-skills-in-data-intensive-re… COURSE DESCRIPTION Successfully undertaking a PhD in the 21st century requires researchers, from all disciplines, to have basic training in software development and the management and stewardship of their data resources. However, for many scientists, the prospect of developing the skills needed to engage increasingly diverse and complex e-infrastructure is daunting. For this reason, NLeSC,<https://www.esciencecenter.nl/> and its partners SURFsara<http://www.surfsara.nl/>, DTL<http://www.dtls.nl/> and VU<http://www.vu.nl/en/> have set up a course that will provide PhD students in the life sciences, who are developing software or working with large data resources, the experience and knowledge to empower their use of data and development of research software. It will equip participants with essential skills required to optimise their research now and in the coming years.  Students completing this course will have the basic skills and knowledge required to manage large datasets, utilise databases, produce metadata and ensure the long-term stewardship of their data. The course will provide students with their first introductions to programming and will demonstrate that anyone can code. Participants will also understand the basic requirements of sustainable software development, including the use of coding environments and the need for version control and testing. Key aspects of software and data carpentry and data stewardship will be taught. Finally, the course will provide an introduction to e-infrastructure and show how this can be accessed and used to improve the speed and quality of research. For Life sciences the following essentials will be brought forward in the course: · Dealing with Data: Data Provenance & PID, FAIR Data Stewardship, From Excel to databases, SQL & Python practicals · Computation & Automation: Introductions to command line, programming (Python), Github, version control, unit testing, Debugging, Documentation. · e-Infrastructure: Introduction and examples moving from small local to big national compute and data storage services. Dr. Celia W.G. van Gelder Education Manager BioSB Coordinator Education CMBI Programme Manager Learning DTL/ELIXIR-NL tel. +31613375327 e-mail: Celia.vanGelder(a)radboudumc.nl<mailto:Celia.vanGelder@radboudumc.nl> websites: www.nbic.nl<http://www.nbic.nl/>, www.biosb.nl, www.cmbi.ru.nl<http://www.cmbi.ru.nl/>, www.dtls.nl Postal address: CMBI 260 Radboud University Nijmegen-Medical Centre PO Box 9101 6500 HB Nijmegen The Netherlands Het Radboudumc staat geregistreerd bij de Kamer van Koophandel in het handelsregister onder nummer 41055629. The Radboud university medical center is listed in the Commercial Register of the Chamber of Commerce under file number 41055629.

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Vacancy Scientist Biostatistics / Biotechnology @ DSM, Delft, The Netherlands
by Roubos, Hans 22 Dec '15

22 Dec '15

Dear colleagues, We have an open position for a: Scientist Biostatistics Research & Development | Netherlands, Delft Job ID: NUTR01669 | Close date: 2016-01-18 The Challenge Within the DSM Biotechnology Center there is a vacancy for the position of Scientist Biostatistics Located at Delft, The Netherlands The Position * As a Scientist Biostatistics, you will be located at the DSM Biotechnology Center in Delft, supporting business-driven R&D projects with design of experiments, data processing and statistically analysis for end-applications in food, pharma and/or bio-based chemicals and fuels. * Being part of the bioinformatics & modeling group, you will participate in multidisciplinary teams in which you will be the statistical expert across the different disciplines. * Projects may range from medium to high-throughput screenings for enzyme and strain development, applied biochemistry and analytical data, to QA/QC support for manufacturing, depending on your background and interest. * Your challenge will be to develop, implement and apply state-of-the-art statistical tools and workflows. The Ideal * Ph.D. in chemometrics, statistics, metabolic modeling, computational methods, bioinformatics, or a related discipline. Additional training or degree in biochemistry, molecular biology, food or biotechnology is considered to be an advantage. * Preferably 2-5 year experience, preferably in statistical data processing of biological data or fermentation data * Experience in setting up and applying statistical tools for quality control is an advantage. * Expert in R, Matlab, Spotfire, SAS, Minitab, Statgraphics or other statistical software packages * Experience using optimal experimental design techniques is a plus * Strong desire and proven ability to work collaboratively in multi-disciplinary project teams * Multidisciplinary team player, who takes initiative * Personal skills like problem analysis, creativity and being a strong communicator characterize your identity. DSM's wide diversity of disciplines makes it possible to offer employees a great variety of roles throughout their career. For instance, you may start your career in an area related to your education or qualifications, but your future is what you make of it. At DSM we stimulate people to determine their own career path and we encourage international careers. We strive to be an Employer of Choice and ensure that our employees are nurtured and given the opportunity to develop their talents. To learn more about DSM's HR vision and policy, please visit our website at www.dsm.com/career. The Procedure and Contact The DSM Recruitment and Selection Process is in line with the general procedure outlined elsewhere on our Career World. Please apply on-line and send your CV & cover letter and include information on your current remuneration. Please submit your application before deadline:10th of August Reference check procedures are part of the DSM Recruitment & Selection Process. You will be contacted when these references checks are required. http://www.dsm.com/corporate/careers/vacancies/dsmvacancies.html #LI-HN1 Kind regards, Hans Roubos | Principal Scientist Bioinformatics & Modeling | DSM Food Specialties B.V. | Alexander Fleminglaan 1 | 2613 AX Delft | Netherlands | T +31 (0)15 2792147 | Trade Register Number 27235314 | Stay connected: [http://static.dsm.com/content/dam/dsm/images/twitter.png] <https://twitter.com/DSM> [http://static.dsm.com/content/dam/dsm/images/linkedin.png] <https://www.linkedin.com/company/3108> [http://static.dsm.com/content/dam/dsm/images/youtube.png] <https://www.youtube.com/user/dsmcompany> [http://static.dsm.com/content/dam/dsm/images/googleplus.png] <https://plus.google.com/117689312065000346895#117689312065000346895/posts> [http://static.dsm.com/content/dam/dsm/images/facebook.png] <https://www.facebook.com/DSMcompany> [http://static.dsm.com/content/dam/dsm/images/DSM_Email_EN.jpg] ________________________________ DISCLAIMER: This e-mail is for the intended recipient only. If you have received it by mistake please let us know by reply and then delete it from your system; access, disclosure, copying, distribution or reliance on any of it by anyone else is prohibited. If you as intended recipient have received this e-mail incorrectly, please notify the sender (via e-mail) immediately.

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ALPHY 2016
by Denis BAURAIN 22 Dec '15

22 Dec '15

Apologies for cross-posting :-) __________________________________________________ ALPHY 2016: French-Belgian meeting on Bioinformatics and Evolutionary Genomics March 17-18 2016, Lille (France) Important date: Deadline for abstract submission, travel grant application and registration: January 15 2016 ALPHY is an annual meeting, organized in France since 1995, dedicated to the field of Bioinformatics and Comparative Genomics (ALPHY = ALignments and PHYlogeny). The main goal of this meeting is to promote informal communication in this highly multidisciplinary field, and to encourage young scientists to present their work. This year, ALPHY is co-organized by Belgian and French scientists in Lille, with the hope of enhancing scientific exchanges between research groups of these two countries. There will be two invited speakers (Karine Van Doninck and Christian Parisod), and the program will be open for around 20 contributions of 20' talks. ALPHY is funded by the GdR BiM (working group in Molecular Bioinformatics). Registration to the meeting is free, but mandatory. Please use the link below to register. If you wish to present your work, please submit an abstract in the registration form. Some budget will be available for supporting the travel expenses of young speakers. Please indicate whether you are asking for such a travel grant when registering. Tot straks ! A bientôt ! See you in Lille ! Alphy 2016 web site: http://lbbe.univ-lyon1.fr/alphy/ Contact: celine.poux(a)univ-lille1.fr The organizing committee: Denis Baurain Céline Brochier-Armanet Laurent Duret Nicolas Galtier Philippe Lemey Céline Poux Xavier Vekemans __________________________________________________

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New permanent position: drug discovery data scientist, Janssen
by Ceulemans, Hugo [JRDBE] 21 Dec '15

21 Dec '15

Drug discovery data scientist Key words: data sciences, computational biology, bioinformatics, drug discovery Permanent position at Janssen in Beerse Context Within the Discovery Sciences group, which provides advanced technology support to drug discovery projects in Janssen, the Computational Sciences department is responsible for comprehensive analyses of high-dimensional datasets. The position will be opened on the Beerse campus, which is the largest R&D center for small molecules within the entire Janssen group, investing over 1 billion euros each year in R&D. Activities cover the integration of information from the broadest possible spectrum of datasources (chemical structure, microscopy images and omics, ...) to comprehensively infer biological activities of millions of chemical compounds, and to apply these predictions to inform projects. In addition, the team designs and supports the execution of the generation of high-dimensional datasets (from cytometry or various sequencing approaches) from patient-derived material. The team is also responsible for the use of these data for the identification of potential mechanisms of disease and targets of intervention and the subpopulations of patients these mechanisms apply to. Job description In the context of the latter task, the department is opening a permanent position for a drug discovery data scientist, who will focus on the analysis and interpretation of high-dimensional datasets to identify interventional strategies for neurological, cardiovascular and metabolic, infectious, immunological or oncological diseases. The candidate will be responsible for * the translation of questions of disease experts in the therapeutic areas and wet lab colleagues, to a quantitative analysis formulation * the design and execution of targeted analysis approaches to link processed molecular and cellular data at scale to pathophysiological processes or clinical outcome, to produce actionable conclusions and to inform decision making * the development and internalization of rigorous state-of-the-art approaches for integrative data analysis, and build-out and leveraging of collaborations with leading academic and industrial scientific teams in life, computational and data sciences * work with informatics and statistics colleagues to offer the resulting analysis and visualization solutions to the project teams * contributing to the scientific weight of the department by authoring peer-reviewed papers and presenting at relevant conferences Qualifications and skills * PhD in Computational Biology or any related quantitative field with direct exposure to multidisciplinary biology or clinical context with ideally a few years of post-doctoral experience in an academic or industrial setting * demonstrated experience with linking high-dimensional molecular data, to phenotypic or clinical outcomes in constellations that led to hypothesis driven experimental or clinical follow-up * advanced programming and scripting skills that enable the development of functional prototypes * excellent communication, reporting and team interaction skills, self-motivation, proactivity and the ability to work independently If you are interested, please reply with the appropriate documentation to hceulema - at - its - dot - jnj - dot - com.

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bioinformatics Post-doc position for 2 years
by Stephane Rombauts 19 Dec '15

19 Dec '15

Dear. > Comme vous le savez nous sommes toujours à la recherche d’un(e) candidat(e) pour un postDoc en bio-analyse . > Si la personne est étrangère et n’a pas séjourné en France nous pouvons lui proposer un contrat plus long >grace a un financement régional que nous avons obtenu sur le projet . in attachment position in France Roscoff (Bretagne) for a bioinformatics position for 2years if the candidate is currently not living in France. Deadline end of 2015!!! Best regards

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