- BBClist - maillist.psb.ugent.be

[Gtpb] ABSTAT14 Advanced Biostatistics training course - announcement
by Pedro Fernandes 01 Aug '14

01 Aug '14

The Gulbenkian Training Programme in Bioinformatics is happy to announce that the ABSTAT14 - "Advanced Biostatistics for Bioinformatics Tool Users using R" training course is open for applications IMPORTANT DATES for this Course Deadline for applications: September 5th 2014 <========= Latest acceptance notification: September 6th 2014 <========= Course date: September 15th - 18th 2014 Attendance fee: Euro 320.00 Course description This course is a standalone advanced Biostatistics course that can be taken as a continuation of the Introductory Biostatistics for Bioinformatics (IBSTAT) course that precedes it in GTPB. It is targeted for Biostatistical techniques often employed in analytical tools for high throughput data and multivariate data. Participants can expect to attend a thorough set of lectures that will reveal the conceptual frameworks that are needed to understand the methods. Extensive hands-on practice will be the main vehicle for providing the skills and user independence. To keep things in context, the course is exclusively based on biological examples, worked with Bioinformatics tools. Care has been taken not to use any proprietary data or software, so that the hands-on experience can carry on after the course, providing maximum user independence. We will be using custom-built R scripts and packages that are available from the CRAN and Bioconductor repositories. Methodology This intensive course will introduce a relatively high number of concepts and methods. To keep it highly practical, we will spend most of the time in hands-on sessions. - We will focus on each method using examples taken from real world Bioinformatics practice. - We will then dissect the method, identifying the concepts and exploring their interrelationships. - The applicability and limitations of each method will be emphasized. - The use of the method will be illustrated using appropriate Bioinformatics tools and biological data resources. ------------------------------------------------------------ Due to the summer period, there will be little time to deal with the applications, so the sooner you apply the better and we will do our best to make the acceptance process run smoothly. Early acceptance decisions will be the rule, not the exceptions, though you can help in justifying why you need to know about it in advance (please use the appropriate space in the Application Form). More details, including APPLICATION instructions can be found under the URL: http://gtpb.igc.gulbenkian.pt/bicourses/ABSTAT14/ Thank you for your interest P. Fernandes GTPB Coordinator -- Pedro Fernandes Instituto Gulbenkian de Ciência Apartado 14 2781-901 OEIRAS PORTUGAL Tel +351 21 4407912 http://gtpb.igc.gulbenkian.pt _______________________________________________ Gtpb mailing list Gtpb(a)igc.gulbenkian.pt https://lists.igc.gulbenkian.pt/mailman/listinfo/gtpb

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FW: vacature bioinformatician
by Katrijn Vannerum 29 Jul '14

29 Jul '14

There is a bioinformatician position at Bayer CropScience in Ghent. Project manager N2N (From Nucleotides to Networks) Multidisciplinary Research Partnership Bioinformatics and Systems Biology Ghent University http://www.nucleotides2networks.be/ twitter: @N2N_UGent Katrijn.Vannerum(a)UGent.be<mailto:Katrijn.Vannerum@UGent.be> Technologiepark 927 9052 Gent, Belgium +32 (0)9 331 36 85 [cid:image001.png@01CFAB15.B5757370]

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Bioinformatics Research Position @ CRP-Santé, Luxembourg
by Francisco Azuaje 29 Jul '14

29 Jul '14

Research Engineer Position in Bioinformatics As part of an international research cooperation project, infused-project.eu, we are seeking a highly motivated research engineer with demonstrable capacity to develop new software for biological research. Essential skills and experience: The successful candidate will meet all of the following requirements: 1. BSc or equivalent degree in computing, bioinformatics or closely related area. 2. MSc in bioinformatics, systems biology or related area. 3. Demonstrable experience developing Web-based, data-driven applications. 4. Good communication skills in English. Desirable skills and experience: Candidates possessing these skills and experience will be given priority: 1. Experience in database development. 2. Solid understanding of data mining and visualization. 3. Experience in coding applications for multi-source data integration. What we offer: Apart from remuneration, the successful candidate will have different career advancement opportunities, including: 1. Working in a truly inter-disciplinary team-oriented research environment. 2. Developing experience in translational bioinformatics. 3. Improvement of scientific communication skills. 4. Potential co-authorship of publications. Where and when: The successful applicant will be affiliated with the NORLUX Neuro-Oncology Laboratory of CRP-Santé in Luxembourg (www.crp-sante.lu<http://www.crp-sante.lu>). This full-time position may begin as early as 1 October 2014, and will have a total duration of 12 months. If you wish to apply for this position, email your CV (no longer than 2 pages), screenshots of GUIs previously developed (no longer than 2 pages), and a 1-page cover letter. Applications must be submitted via: http://www.crp-sante.lu/Jobs2/Jobs-opportunities/Selection (Department of Oncology, REF: ME/REngineer/SN/LRNO) All documents must be provided in a single PDF file. Applications not complying with this format, or not meeting all the essential selection criteria will not be considered. Deadline for receiving applications: 1 September 2014. _________________________________ Francisco Azuaje, PhD Senior Researcher NORLUX Neuro-Oncology Laboratory Centre de Recherche Public de la Santé (CRP-Santé) 1A-B, rue Thomas Edison, L-1445 Strassen Luxembourg Tel: +352 26970-875 Fax: +352 26970-396 Email: francisco.azuaje(a)crp-sante.lu<mailto:francisco.azuaje@crp-sante.lu> Website: http://www.crp-sante.lu Join us on Facebook and follow our activities on Twitter: http://www.facebook.com/crpsante http://twitter.com/crpsante http://www.norlux.lu This message (including any attachments) is intended for the addressee only and may contain confidential and/or privileged information and/or information protected by intellectual property rights. If you have received this message by mistake, please notify the sender by return e-mail and delete this message from your system. You should not use, alter, copy or distribute this message or disclose its contents to anyone. E-mail transmission can not be guaranteed to be secure or error free as information could be intercepted, corrupted, lost, destroyed, arrive late or incomplete, or contain viruses. CRP-Santé shall not be responsible nor liable for the proper and complete transmission of the information contained in this communication nor for any delay in its receipt or damage to your system.

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9th Benelux Bioinformatics Conference (BBC 2014) - call for abstracts
by Joanna SMULA-OSTASZEWSKA 28 Jul '14

28 Jul '14

Dear Colleagues, Luxembourg Centre for System Biomedicine of University of Luxembourg (LCSB) and Centre de Recherché Public de la Santé (CRP-Santé) organize the 9th edition of the Benelux Bioinformatics Conference (BBC 2014). The conference is affiliated by International Society for Computational Biology (ISCB)<http://www.iscb.org/>. The event entitled "Bioinformatics: Integrating data, teams and disciplines" will take place in Novotel-Kirchberg in Luxembourg, on December 8th-9th. Conference coordinators invite you to submit your abstracts through the registration/submission system<http://lcsb.ldorganisation.lu/v2/produits.php?langue=english&cle_menus=1240…>. Conference topics cover all fields of bioinformatics, including: * Biotechnologies * Computational biology * Research on biological networks * Structural bioinformatics * The analysis of the high-throughput sequencing data * Micro-array expression data, etc. Detailed information may be found on the conference website http://www.bbc2014.lu/ We anticipate that the BBC 2014 will once again greatly foster the collaboration and research activities between scientists in the Benelux area. Please feel free to distribute this announcement to your interested colleagues and do not hesitate to contact us in case of further questions. Regards, Joanna Smula-Ostaszewska Dr.Eng. Joanna Smula-Ostaszewska Scientific assistant Université du Luxembourg Luxembourg Centre for Systems Biomedicine (LCSB) Campus Belval; 7, Avenue des Hauts-Fourneaux; L-4362 Esch-Belval; Luxembourg T: +352 46 66 44 6373 http://lcsb.uni.lu<http://lcsb.uni.lu/> --- This message is confidential and may contain privileged information. It is intended for the named recipient only. If you receive it in error please notify me and permanently delete the original message and any copies.

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Junior PI meeting @ECCB: still time to register!
by Magali Michaut 26 Jul '14

26 Jul '14

** Registration deadline: August 1 ** Date of the meeting: 7 September 2014 http://www.eccb14.org/program/satellite-meetings/jpi Transitioning from Post-doc to (junior) PI is a major step in the scientific career ladder bringing new challenges to the scientist. Key among these challenges is moving from a single project-based responsibility to being responsible for the projects of students, technicians, and postdocs. On top of this, the researcher is expected to be a successful grant writer, a human resources manager, an engaging speaker, etc. In this meeting we aim to bring together scientists who have recently started or wish to start their own research group. This meeting will serve as a platform for building a community of junior PIs within the broader field of Computational Biology. The meeting will consist of (scientific!) speed-dating, short presentations and round-table discussions. Speakers: Sampsa Hautaniemi, University of Helsinki Lennart Martens, Ghent University, VIB Oliver Kohlbacher, University of Tübingen Sebastian Schultheiss, Computomics Alice C. McHardy, University Duesseldorf (ECCB keynote) Organizers: Virginie Bernard, Curie Institute, Paris, France Magali Michaut, Netherlands Cancer Institute, Amsterdam, the Netherlands Lennart Martens, Ghent University and VIB, Belgium Theodore Alexandrov, University of Bremen, Germany; University of California San Diego, USA Sponsor: F1000 Research We hope to see you in France in September! COSI JPI: http://cosi.iscb.org/wiki/JPI:Home contact: jpicontact(a)iscb.org ISCB COSIs: http://www.iscb.org/iscb-cosis

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Environmental Metagenomics Course & Symposium, 15-19 September 2014, Wageningen, the Netherlands
by Celia.vanGelder＠radboudumc.nl 26 Jul '14

26 Jul '14

Dear colleague, Metagenomics has quickly become one of the most important discovery tools in microbial ecology. Metagenomics is a powerful tool to study the organisms in microbial communities, that has numerous applications in many areas of biomedical science. By bypassing the need for laboratory culturing, this technology can unlock the massive uncultured microbial diversity, enabling the microbial component of specific environments to be surveyed, discover new organisms, and explore the dynamic ecology of microbial populations under changing conditions. The high throughput nature of metagenomics means that huge datasets are generated, and in order to extract biological information from these data, advanced bioinformatics and statistical tools are indispensable. >From 15-19 September 2014 we organize a five-day course at NIOO-KNAW in Wageningen. Participants will get hands on experience in the analysis and treatment of metagenomic data, including preprocessing and quality filtering, data handling and submission to public archives, annotation, multivariate statistical analyses, and metagenome assembly. Course website: http://nioo.knaw.nl/en/metagenomics-course . Course fee: 350 euro, including hotel accommodation. On the last day of the course, 19 September 2014, we are organizing an Environmental Metagenomics Symposium which will bring together renowned scientists in microbial ecology and bioinformatics, who will present their recent explorations of the microbiota of different environments. Moreover, we will welcome the presentations of several students of the metagenomics course held in the week leading up to this symposium. Together, this will be an exciting opportunity to see the latest advances in environmental metagenomics from young talents as well as established leaders in the field. The symposium is open for everyone interested in environmental metagenomics. Symposium website: http://nioo.knaw.nl/en/metagenomics-symposium Symposium fee: Attending the symposium is free of charge, but you have to register via the symposium website A pdf with the programme of both course and symposium is attached to this mail. The organization of course and symposium has been made possible with the generous support of AllBio.<http://www.allbioinformatics.eu/doku.php> Best regards, Bas Dutilh (Utrecht University & Radboudumc) Eiko Kuramae (NIOO-KNAW) Celia van Gelder (Radboudumc) Dr. Celia W.G. van Gelder Projectleader Education NBIC/BioSB Coordinator Education CMBI Programme Manager Learning DTL tel. +31-(0)24-3666120 e-mail: Celia.vanGelder(a)radboudumc.nl<mailto:C.vanGelder@umcn.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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Disease Comorbidities, Workshop ECCB'14 - Time to register!
by BAUDOT Anaïs 24 Jul '14

24 Jul '14

Dear all, We are pleased to announce the ECCB'14 satellite workshop dedicated to Disease Comorbidities that will take place Sunday, 7th September, 2014, in Strasbourg, France. The workshop is organised around 3 sessions scoping the discovery, the interpretation and the exploitation of disease comorbidities. Program and registration: http://www.eccb14.org/program/workshops/csbdc Sunday, 7th of September 9:00 - 17:00 Forum Building Strasbourg Faculty of Medicine Deadline for early registration: August, 1st !! Looking forward seeing you in Strasbourg, Anaïs Baudot and Alfonso Valencia

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Postodoctoral position (29 months) in bioinformatics at ULB, Brussels, Belgium
by chermans 23 Jul '14

23 Jul '14

Postodoctoral position (29 months) in bioinformatics Lab. of Plant Physiology and Molecular Genetics, Universite Libre de Bruxelles, Brussels, Belgium ********************** Genetic and nutritional influences on the root architecture of Brassicaceae species Nitrogen (N) is the quantitatively most important nutrient required by crops, however a considerable fraction of N fertilizer gets lost as runoffs with detrimental consequences to the environment and greenhouse gas emission. Faced with those pressing societal costs, innovation has to make a step change to improve Nitrogen Use Efficiency (NUE) of plants. While the root organ is largely out of sight, the proposal aims at modifying root architecture (more branched system) to take up N sources more efficiently and thereby provides a sustainable and bio-economical solution to maintain crop productivity whilst reducing N input. The goal of this research is to first identify the genetic determinism that regulate N-related root morphology in the model species Arabidopsis, then to use that information in parented Brassica crops for redesigning their root architecture and ultimately improve NUE. One post-doc fellowship for non-Belgian resident (29 months) - as early as August 2014 Bioinformatics analyses of genomic data (Arabidopsis thaliana and Brassica napus) Relevant experience: gene network regulation, data mining, comparative genomics, next-generation sequencing, RNAseq, genome wide association, ShoreMap Conditions: < 5 y after PhD, < 3 y residency in Belgium Enthusiastic bioinformatician researchers meeting these criteria are kindly invited to contact Christian HERMANS (chermans(a)ulb.ac.be) Include your CV, qualifications, publications list and the names of two academic referees whom I can approach prior to appointment. Applications must be received by August 15th 2014.

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Call for participation and posters - MLSB14, Machine Learning in Systems Biology
by Pierre Geurts 22 Jul '14

22 Jul '14

[Apologies for cross-postings] Call for Participation and Poster Presentation MLSB14, the eighth International Workshop on Machine Learning in Systems Biology http://www.mlsb.cc Organized in conjunction with ECCB 2014 Strasbourg, France, September 6-7, 2014. --- We invite you to join us for the eighth installment of Machine Learning in Systems Biology (MLSB) 2014, which will be held as a 2-day ECCB workshop on September 6 and 7 in Strasbourg, France The full program of MLSB 2014 can be found online at http://mlsb.cc The highlights of MLSB 2014 include five invited talks by * Pierre Baldi, UCI University, California, USA Carbon-Based Computing Vs Silicon-Based Computing: A New Theory of Circadian Rhythms Abstract * Anne-Laure Boulesteix, Department of Computational Molecular Medecine, IBE, Ludwig-Maximilians Universität München, Germany Title to be announced * Karsten Borgwardt, Department of Biosystems Science and Engineering (D-BSSE), ETH Zürich Machine Learning for Personalized Medicine Abstract * Jean-Loup Faulon, IBSS, CNRS, Genopole, University of Evry, France Using Machine Learning in Synthetic Biology: The Design-Build-Test and Learn cycle Abstract * Nicola Segata, Centre for Integrative Biology, University of Trento, Italy Machine learning challenges in computational meta'omics One page abstract can still be submitted through the easychair submission system until August, 15 for poster presentation at the workshop: http://www.easychair.org/conferences/?conf=mlsb2014 Please note that the early registration deadline for MLSB/ECCB is August 1, 2014 (for registration visit http://www.eccb14.org/registration) We are looking forward to meeting you in Strasbourg! Best regards, Florence d'Alché-Buc and Pierre Geurts

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Workshop on “Exploiting and understanding Solanaceous genomes”
by Warris, Sven 21 Jul '14

21 Jul '14

Dear all, We have an announcement for a workshop on Solanaceous genomes. The workshop is free of charge. See attached documents for more information. Best, Sven Warris Workshop on “Exploiting and understanding Solanaceous genomes” Organised by the transPLANT Consortium[1], October 13-14, 2014 Wageningen, the Netherlands We are pleased to announce the 3rd transPLANT user Training Workshop in Wageningen, the Netherlands (Wageningen University & Research Centre) on October 13-14, 2014. transPLANT is a vibrant consortium of 11 European partners gathered to address the challenges of complex plant genome data integration and analysis. It aims to develop a trans-national infrastructure for plant genomic science. For details, please visit http://transplantdb.eu/. This third workshop (see detailed program below) focuses on current developments in plant data resources at transPLANT partner sites, with a special reference to Solanaceae and its genomes, especially tomato and potato. The workshop is targeted at (experimental) biologists and breeders who have needs to use these resources in everyday work to interpret own observations and plan new research objectives. No particular prior (informatics) knowledge or skills are required. In the different sessions, the workshop will introduce partner resources and tools, with emphasis on hands-on training how to obtain, search and use this data. The local organizer is Wageningen University & Research Centre (WUR), Applied Bioinformatics, Plant Research International. ________________________________ [1] The transPLANT project is funded by the European Commission since September 2011 within its 7th Framework Programme under the thematic area "Infrastructures", contract number 283496.

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