- BBClist - maillist.psb.ugent.be

omics/epigenetics conference in Ghent, 12-15 September 2016: call for abstracts
by Katrijn Vannerum 05 Apr '16

05 Apr '16

Invitation to submit abstract to omics/epigenetics conference in Ghent, 12-15 September 2016 Dear all, We are very excited to announce that the joint SETAC/iEOS conference on environmental and (eco)toxicological omics and epigenetics will take place in Ghent, 12-15 September, 2016. Sessions will include fundamental and applied environmental, ecological, evolutionary, archaeological, microbial, and (eco)toxicological genomics, epigenetics and metagenomics. All details about program, venue, abstract submission and registration can be found here: http://epigenetics.setac.eu Abstracts for platform and poster presentations can be submitted until 15 June. Special registration fees apply for students. Confirmed session keynote speakers so far are: - Prof. Jeroen Raes, VIB, UGent, Belgium - Prof. Mark Blaxter, University of Edinburgh, UK - Prof. Eske Willerslev, University of Cambridge, UK - Prof. Mark Viant, University of Birmingham, UK - Prof. Juliette Legler, University of Amsterdam, NL - Prof. Ben Brown, University of California, USA - Prof. Joe Shaw, University of Indiana, USA - Prof. Joëlle Rüegg , Swedish Toxicology Science Research Center, Stockholm We look forward to welcoming you at our conference! Sincerely, Prof. Karel De Schamphelaere Dr. Jana Asselman (UGent members of the organizing committee) Karel De Schamphelaere, Ph D Associate Professor www.ecotox.ugent.be Follow us on Twitter @GhEnToxLab Ghent University (UGent) Laboratory of Environmental Toxicology and Aquatic Ecology Environmental Toxicology Unit (GhEnToxLab) Jozef Plateaustraat 22 B9000 Gent Belgium Tel. +32 9 264 3764 Fax +32 9 264 3766

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VIB BITS Upcoming Bioinformatics Training Sessions - FYI
by Alexander Botzki 04 Apr '16

04 Apr '16

[VIB] [VIB] VIB Bioinformatics Training May sessions IN THIS ISSUE * Basic statistics theory * Hands-on introduction to ChIP-Seq analysis Basic statistics theory This training is an introduction to a series of hands-on trainings on the statistical analysis of life sciences data: 'Basic statistics in R<http://bits.cmail20.com/t/r-l-edrjuut-shyuuqkd-t/>' and 'Basic statistics in Graphpad Prism<http://bits.cmail20.com/t/r-l-edrjuut-shyuuqkd-i/>'. If you want to follow one of these trainings, you are strongly advised to follow this introduction. Ít will give you all the theoretical background that you need.. Date: 2 May Location: Park Inn, Leuven Trainer: Janick Mathys (BITS) More information and registration: VIB website<http://bits.cmail20.com/t/r-l-edrjuut-shyuuqkd-d/> Hands-on introduction to ChIP-Seq analysis This training gives an introduction to ChIP-Seq data analysis, covering the processing steps starting from the reads to the peaks. Among all possible downstream analyses, the practical aspect will focus on motif analyses. Requirements: * Basic knowledge of Illumina NGS read structure. People who lack this knowledge can follow the Introduction to NGS data analysis<http://bits.cmail20.com/t/r-l-edrjuut-shyuuqkd-o/> training. * Basic Linux command line understanding. If you have no experience with Linux command line, you should follow the Linux for bioinformatics<http://bits.cmail20.com/t/r-l-edrjuut-shyuuqkd-b/> training. Date: 20 May Location:Park Inn, Leuven Trainer:Morgane Thomas-Chollier (Ecole normale supérieure, Paris) More information and registration: VIB website<http://bits.cmail20.com/t/r-l-edrjuut-shyuuqkd-n/>

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CSC Summer School in HPC, Jun25-Jul3 2016, (deadline for registration April 10 2016)
by Celia.vanGelder＠radboudumc.nl 03 Apr '16

03 Apr '16

* CSC Summer School in High-Performance Computing 2016 (Jun 25 - Jul 3) * Seven days of coding, sport activities and good company right in the middle of beautiful Finnish nature just 30km from Helsinki. Join the fun and register now at: https://www.csc.fi/web/training/-/csc_summerschool_2016 The 7th CSC Summer School in HPC brings together undergraduate and graduate students as well as postdoctoral researchers from different disciplines of scientific computing. The school consists of lectures and hands-on training on parallel programming, code optimization and other essential skills in development of scientific software. During the school you can build up your HPC expertise from almost zero up to an intermediate / semi-advanced level. The aim of the school is to give you the skill set necessary to start writing high-performance scientific software! ... and to have a great time while doing it! A more detailed program together with further details about the school is available on-line: https://www.csc.fi/web/training/-/csc_summerschool_2016 -- * See the full list of events and courses at CSC: www.csc.fi/training * Follow us on Twitter: twitter.com/CoursesAtCSC * Feel free to pass this message along! * Unsubscribe: postit.csc.fi/sympa/sigrequest/compute-server-announcements _______________________________________________ Training mailing list Training(a)elixir-europe.org https://lists.elixir-europe.org/mailman/listinfo/training 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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RSG Belgium Symposium 2016: Bioinformatics/Computational Biology
by Cuypers Bart 01 Apr '16

01 Apr '16

Dear Colleague, I would like to invite you to the upcoming RSG Belgium Symposium 2016. The symposium will take place on June 3, 2016, 2PM at the University of Leuven. (Room 331-01 Landbouwinstituut Hoofdgebouw, Kasteelpark Arenberg 20, 3001 HEVERLEE) The event is focused around young bioinformaticians/computational biologists (master students, PhD students, young post-docs), who will get the opportunity to present their work in a broad research context and network with one another. I am very happy to announce our keynote speaker for this event, prof. dr. Yves Moreau. Prof. Moreau's research focuses on systems biology techniques to understand how variation in a genome leads to variation in risk and severity of genetic diseases. He also applies these techniques for diagnosis and disease gene discovery in congenital genetic disorders. Additionally, Prof. Moreau is an active member of the ISCB community. Not only is he currently a member of the ISCB board of directors, he also chaired ECCB in 2010 and in 2014. Registration is free but mandatory, and can be done by filling in the form at: http://goo.gl/forms/whU1ay8YLe After the symposium (incl. reception), for those interested, we will have a social event in Leuven (walk, dinner, drinks). You can submit an abstract for an oral presentation until April 30, 2016 by mail to rsg-belgium(a)iscbsc.org<mailto:rsg-belgium@iscbsc.org>. You are most welcome to send this invitation to anyone that might be interested! Hope to see you there, Bart Cuypers RSG Belgium President

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Quantitative Genomics 2016 conference
by ISCBSC announcement 31 Mar '16

31 Mar '16

Dear all, We invite ISCB SC members to submit an abstract for a short podium talk, long podium talk, or poster to the Quantitative Genomics 2016 conference on 6 June in London (http://quantitative-genomics.com/) Abstract submission is currently open. Please share this with your colleagues. Quantitative Genomics 2016 is a student conference that will bring together graduate students and early-career researchers from around the world working at the forefront of mathematical and statistical genomics. Best wishes, Charles --------------------- Charles Breeze PhD student – Stephan Beck Group UCL Cancer Institute University College London London WC1E 6BT Dit e-mailbericht is verzonden vanaf een virusvrije computer die wordt beschermd door Avast. www.avast.com <https://www.avast.com/sig-email?utm_medium=email&utm_source=link&utm_campai…> <#DDB4FAA8-2DD7-40BB-A1B8-4E2AA1F9FDF2>

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ECCB 2016: Extended submission deadlines!
by Femke Francissen 29 Mar '16

29 Mar '16

*-------------------------------------------------------------------------------------------------------* *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/ ------------------------------------------------------------------------------------------------------- ** ** *Extended submission deadlines* We extended the deadlines for the submissions for Proceedings, Highlights, Applications and ELIXIR applications for the ECCB 2016 programme. - Proceedings & Highlights: new deadline: *5 April 2016* - Applications & ELIXIR applications: new deadline: *18 April 2016* All deadlines are 23h59 in the time zone of your choice. *Read more:* - Call for Proceedings <http://www.eccb2016.org/calls/proceedings/> - Call for Highlights <http://www.eccb2016.org/calls/highlights/> - Call for Applications <http://www.eccb2016.org/calls/applications/> - Call for ELIXIR Applications <http://www.eccb2016.org/calls/elixir-applications/> *Applications track:* The Application Track is a new initiative to promote the application of computational biology. The aim of the track is to give a voice to those who work outside of academia (often having alternative dissemination strategies relative to scientific publishing, which may reduce their visibility, and that of their work) to the academic community. This track is a platform for presenting (software) applications, which may be untraditional and uncommon at purely academic conferences. The Application Track explicitly aims to bridge academia with other application sectors of computational biology and to cross-disseminate both sides. Submissions to the Application Track are invited from sectors including, among others, pharmaceutical industry, biotech startups, clinics, but also academic groups tightly collaborating with any of these. Read more <http://www.eccb2016.org/calls/applications/> *Register now!* You can now register for the ECCB 2016 via: http://www.eccb2016.org/registration/ *Organisers* 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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Postdoc position in Evolutionary and Comparative Genomics
by Thomas Van Parys 29 Mar '16

29 Mar '16

Postdoc position in Evolutionary and Comparative Genomics *Job description* A two year postdoctoral position is available in the Van de Peer lab in the Department of Plant Systems Biology (VIB), Bioinformatics Institute Ghent N2N (BIG N2N), Ghent University, starting August 1st 2016. Our research group is considered a center of excellence in gene prediction and genome annotation, and comparative and evolutionary genomics. We are currently looking for someone to strengthen our genome annotation and genome analysis team, in particular someone to work on the comparative analysis of mites, of which many are important pests for plants. Amongst other things, we want to unravel the genetic/genomic cause for specific adaptations linked to lifestyle and herbivory. You will also be involved in the study of gene and genome duplications, another major interest of the research group. *Required Qualifications* The ideal candidate holds a PhD degree in a relevant field (or equivalent through experience), is highly interested, ambitious, curiosity-driven and likes interdisciplinary work. He/she will need to interact productively with evolutionary biologists, genome biologists and computer scientists. Further requirements include a strong bioinformatics background and deep interest in evolutionary and comparative biology. Programming/scripting experience (e.g., Perl, Python, R, …) and experience working in a Linux environment are essential. The project will make extensive use of RNA-seq and genomic data sets (using data from Illumina and PacBio platforms). Therefore, a background in genomic, transcriptomic and/or epigenetic research and experience in evolutionary and/or comparative genomics would be ideal. Since English is the working language of the laboratory and the institute, excellent English communication skills are imperative. *Working environment* The successful candidate will work in the Department of Plant Systems Biology (VIB) at Ghent University. VIB and BIG N2N (http://www.bign2n.ugent.be/) offer a supportive and stimulating environment, with access to excellent computer and academic facilities. The Van de Peer lab is a computational group and consists of a mix of molecular and evolutionary biologists and computer scientists. More information on our research and research topics can be found at http://bioinformatics.psb.ugent.be/. *Contact details* To apply, please send a single document including a letter of motivation describing your research motivation and experience, a detailed CV with a list of publications, and contact details for at least two referees to yves.vandepeer(a)psb.ugent.be <mailto:yves.vandepeer@psb.ugent.be>. __ -- Yves Van de Peer, PhD. Professor, Department of Plant Biotechnology and Bioinformatics, Ghent University Group Leader, Department of Plant Systems Biology, VIB Technologiepark 927 B-9052 Ghent Belgium Phone: +32 (0)9 331 3807 <tel:%2B32%20%280%299%20331%203807> Cell Phone: +32 (0)476 560 091 <tel:%2B32%20%280%29476%20560%20091> Fax: +32 (0)9 331 3809 <tel:%2B32%20%280%299%20331%203809> email: yves.vandepeer(a)psb.vib-ugent.be <mailto:yves.vandepeer@psb.vib-ugent.be> http://bioinformatics.psb.ugent.be/ http://www.nucleotides2networks.be/ http://www.plantgenomeevolution.com/ Part-time Professor at the Genomics Research Institute, Department of Genetics, Pretoria, South Africa

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[Gtpb] Reminder, NEW deadline: PDA16 - Proteomics Data Analysis, bioinformatics training course
by Pedro Fernandes 28 Mar '16

28 Mar '16

Dear all, The Applications for the bioinformatics training course PDA16 - Proteomics Data Analysis, are OPEN. IMPORTANT DATES for this Course Deadline for applications: April 5th 2016 <============ NEW! Course dates: April 11th - April 15th 2016 Details are available here: http://gtpb.igc.gulbenkian.pt/bicourses/PDA16 Course description Mass spectrometry based proteomic experiments generate ever larger datasets and, as a consequence, complex data interpretation challenges. In this course, the concepts and methods required to tackle these challenges will be introduced, covering both protein identification and quantification. The course will rely exclusively on free and user friendly software, all of which can be directly applied in your lab upon your return from the course. An introduction to the available online resources and repositories will also be given. Here you will see how to link the results from proteomic experiments with external data to conduct pathway, gene ontology and interaction analyses. In the course, you will also learn how to submit data to the ProteomeXchange online repositories, and how to browse and reprocess publicly available data from these repositories. The course will provide a solid basis for beginners, but also new perspectives to those already familiar with standard data interpretation procedures in proteomics. Best wishes Pedro 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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Summer Internships in Epigenetics, Cellular Plasticity and Stem Cells at Helmholtz Munich
by Katrijn Vannerum 24 Mar '16

24 Mar '16

For your interest. Kind regards, Katrijn Vannerum PhD Project manager BIG N2N (Bioinformatics Institute Ghent From Nucleotides to Networks) Ghent University http://www.bign2n.ugent.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 [logo_BIG N2N_signature] From: Sacher, Anna, Dr. [mailto:anna.sacher@helmholtz-muenchen.de] Sent: donderdag 24 maart 2016 15:49 To: Katrijn Vannerum <Katrijn.Vannerum(a)UGent.be> Subject: internship Helmholtz Munich Dear Sir or Madam, Would it be possible that you spread the advertisement for this very interesting internship programme at the HelmholtzZentrum in Munich that summer? Also the Institute of Computational Biology (Fabian Theis) is taking part. The Deadline is quite soon (3rd of April), so it would be perfect if you could spread it as soon as possible to your students. https://www.helmholtz-muenchen.de/ies/service/opportunities/summer-internsh… Thanks a lot in advance, Best wishes, Anna Helmholtz Zentrum Muenchen Deutsches Forschungszentrum fuer Gesundheit und Umwelt (GmbH) Ingolstaedter Landstr. 1 85764 Neuherberg www.helmholtz-muenchen.de<http://www.helmholtz-muenchen.de> Aufsichtsratsvorsitzende: MinDir??in Baerbel Brumme-Bothe Geschaeftsfuehrer: Prof. Dr. Guenther Wess, Dr. Alfons Enhsen, Renate Schlusen (komm.) Registergericht: Amtsgericht Muenchen HRB 6466 USt-IdNr: DE 129521671

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New BIG N2N service: ProGenTomics for Proteomics, Genomics, Cell-based techniques
by Katrijn Vannerum 24 Mar '16

24 Mar '16

Dear all, ProGenTomics offers a wide range of proteomics and genomics services and support to the academic community and its external customers. We aim to tailor our services to the needs of our collaborators and customers, while giving great support. [cid:image002.png@01D185BA.AAB58890] What can we do for you? Proteomics We offer different services to separate, identify and quantify proteins in your sample, both in a gel-based and gel-free manner. Genomics >From analysis of one or a few genes by qPCR or RT-qPCR, to high-throuput analysis of the whole genome, transcriptome or epigenome with next-generation sequencing. Cell-based techniques Our cell-based techniques services include everything to culture your cells, characterize them by laser microdissection microscopy or flow cytometry, or even purify them. http://www.progentomics.ugent.be http://www.bign2n.ugent.be/services Contact Katleen Van Steendam Ottergemsesteenweg 460, B-9000 Gent, Belgium +32 9 264 83 56 katleen.vansteendam(a)ugent.be With kind regards, Katrijn Vannerum PhD Project manager BIG N2N (Bioinformatics Institute Ghent From Nucleotides to Networks) Ghent University http://www.bign2n.ugent.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 [logo_BIG N2N_signature]

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