March 2016 - BBClist - maillist.psb.ugent.be

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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[Gtpb] IB16F - Introductory Bioinformatics - with a soft introduction to NGS Data Analysis - Announcement
by Pedro Fernandes 21 Mar '16

21 Mar '16

Dear all, The Applications for the bioinformatics training course IB16F - Introductory Bioinformatics - which is our ENTRY LEVEL training course, with a soft introduction to NGS Data Analysis - are now *OPEN* IMPORTANT DATES for this Course Deadline for applications: April 9th 2016 <======= !!! Course date: April 18th - April 22nd 2016 Candidates with adequate profile will be accepted in the next 72 hours after the application until we reach 20 participants. *WARNING* this is one of our most popular training courses. It usually gets fully booked quite rapidly. Details, including application instructions, are available here: http://gtpb.igc.gulbenkian.pt/bicourses/IB16F This is an ENTRY LEVEL course, not because it is too simple, but because the level of the pre-requisites is very low. It is designed for participants with no a-priori knowledge about Bioinformatics. A variety of reasons, technical and economical, have led to a situation where affordable nucleotide sequencing data comes exclusively from Next Generation Sequencing machinery. This creates extra needs in knowing how to handle such data. Our course will cover this subject in a soft way. As usual in our courses we have two aims: to transfer a lot of skills by hands-on experience, and to maximise usage independence. All of this is achieved in highly interactive sessions, using teamwork and feedback techniques quite extensively. Best wishes, Pedro Fernandes -- Pedro Fernandes GTPB Coordinator 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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Fwd: Vacancy at SAMS, Scotland: Computing and Informatics Technician
by Lieven Sterck 17 Mar '16

17 Mar '16

apologies for cross-posting. wkr, lieven > From: "Claire Gachon" <Claire.Gachon(a)sams.ac.uk> > Sent: Thursday, 17 March, 2016 19:31:08 > Subject: Vacancy at SAMS, Scotland: Computing and Informatics Technician > Dear all, > We are currently looking for a new IT person at SAMS, to support a variety of > scientific projects across marine sciences. Though not necessary, expertise in > bioinformatics would be a key advantage. I would be for ever grateful if you > could spread the word and pass on the following advert to potential candidates. > Thanks so much in advance, > Claire > _________________ > Computing and Informatics Technician > Salary: £28,143 to £30,738 per annum > Fixed Term Appointment – 2 years > SAMS is seeking an enthusiastic person with skills in scientific computing and > data management. Duties will be to support a broad range of scientific projects > in all areas of marine science covering high performance computing, databases, > bioinformatics and application development. Linux Administration, database\SQL > and strong scripting skills are essential; experience with bioinformatics > software and application development would be of major benefit. > Initially for 2 years, this post has potential to be extended as new scientific > projects are awarded. > SAMS offers an employee benefits package as well as generous pension scheme. > Situated at Dunstaffnage on the beautiful west coast of Scotland, the area > offers a range of activities for those who enjoy the outdoors. There is a > nursery adjacent to SAMS as well as a visitor centre and café. > Further information is available on line at www.sams.ac.uk and > https://sams.ciphrro.com/ . Alternatively, please write to: Human Resources, > Computing & Informatics Technician, Job Ref D08/15.SG, The Scottish Association > for Marine Science, Scottish Marine Institute, Oban, Argyll PA37 1QA or e-mail > recruitment(a)sams.ac.uk > The closing date for receipt of applications is 15th April 2016 > SAMS is a registered Scottish charity (SC 009206), has an equal opportunities > policy and welcomes applications from all sections of the community. > ++++++++++++++++++++ > Dr Claire GACHON > Senior Lecturer in Molecular Phycology > Scottish Association for Marine Science > Scottish Marine Institute > PA37 1QA Oban > United Kingdom > claire.gachon(a)sams.ac.uk > Skype contact : claire.gachon > Tel: 0044 16 31 559 318 > Fax 0044 16 31 559 001 > http://www.sams.ac.uk/claire-gachon > ++++++++++++++++++++ > The Scottish Association for Marine Science (SAMS) is registered in Scotland as > a Company Limited by Guarantee (SC009292) and is a registered charity (9206). > SAMS has two actively trading wholly owned subsidiary companies: SAMS Research > Services Ltd (SC224404) and SAMS Ltd (SC306912). All Companies in the group are > registered in Scotland and share a registered office at Scottish Marine > Institute, Oban Argyll PA37 1QA. The content of this message may contain > personal views which are not the views of SAMS unless specifically stated. > Please note that all email traffic is monitored for purposes of security and > spam filtering. As such individual emails may be examined in more detail.

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Research position in Data science at VITO
by Valkenborg Dirk 17 Mar '16

17 Mar '16

Job opening for an associate researcher in data science at VITO Dear Colleagues, We have a job opening at VITO for a data scientists: R&D PROFESSIONAL DATASCIENCE HEALTH The unit Sustainable Health of VITO is looking for a data scientist to join their R&D team which is active in the domain of genomics, proteomics and mobile health. Data science, in its broadest definition, has become an essential pillar to translate health-related research into solutions for the industry and the medical world. As a member of the ABS (Applied Bio&molecular Systems) team, you translate research results into algorithms, operational tools and software packages based on the needs of clients and the market. The developed tools, algorithms and IP may, in the future, lead to new patents. Typically, statistical techniques, data science algorithms and bioinformatics-methods, beyond the state of the art, are applied and developed. This is inseparably tied with knowledge of the measuring platform and the application in the health sector. The added value created by this combined approach is then translated into solutions and products. You will work closely together with the project manager, your colleagues of the ABS team and the client, to identify needs en define client-centered solutions within the agreed time and budget limits. Our customers include (inter)governmental organizations, companies and hospitals. You will contribute to the acquisition of projects and writing of proposals and project proposals. You will ensure the cooperations within national and European consortia en you will expand your network with industrial partners and governments. In the future, you will have the opportunity to acquire projects independently and the possibility to grow towards business development or launch a spin-off initiative. Qualifications You have a Master's degree or PhD in bio-informatics, computer sciences, computational physics/biology or a similar domain. You combine a strong quantitative, mathematical background with a business-oriented spirit. You have experience with programming languages such as Python, Java, C++, ... and with statistical/mathematical software such as R, Matlab, ... You enjoy working in an interdisciplinary environment (bio-informatics, computer sciences, physico-chemistry, molecular biology, mobile health applications, business development, ...) You are interested in the inspiring context of sustainable health. You are solutions-oriented en you enjoy communicating with external partners and clients. You have a customer-oriented attitude and an eye for opportunities. Enthusiasm and entrepreneurship are qualities that characterize you. You like to take initiative, you work flexibly as a team player and you adapt easily to changing circumstances. You have strong communication skills and able to express yourself clearly in English, both orally and in writing. Offer A position in an eminent client-oriented organization, in the area of innovative technology research and science-backed consulting. The opportunity to contribute to putting Flanders on the international map as active knowledge region and thus contribute to sustainable development. An interesting salary package complete with extralegal benefits. Contact Candidates are invited to apply online: https://vito.taleo.net/careersection/vito_careersection_external/jobdetail.… For more information on this vacancy please contact: dirk.valkenborg(a)vito.be<mailto:dirk.valkenborg@vito.be> jef.hooyberghs(a)vito.be<mailto:jef.hooyberghs@vito.be> VITO Disclaimer: http://www.vito.be/e-maildisclaimer

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New job NGS Bioinformatician in LUMC, Leiden, NL
by H.Mei＠lumc.nl 14 Mar '16

14 Mar '16

Dear all, We have one open position for a new bioinformatician working on NGS data analysis and building pipelines in Linux here in Leiden. https://www.lumc.nl/over-het-lumc/werken-bij/vacatures-solliciteren/researc… Please feel free to forward this vacancy to people who might be interested in it. Best regards, Leon -- Hailiang (Leon) Mei Sequencing Analysis Support Core Leiden University Medical Center - http://sasc.lumc.nl Office: LUMC T6-48 Phone: +31 (0)71 5269836 Skype: leon_mei

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