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Benelux Bioinformatics Conference 2015 - 7 & 8 december 2015 - save the date!
by Kris Laukens 08 Apr '15

08 Apr '15

Dear colleague, We are pleased to announce that the upcoming BBC (Benelux Bioinformatics Conference) will be held in Antwerp (BE), on 7-8 december 2015. You are cordially invited to take note of the key dates and coordinates below, and bookmark the website and social media outlets. More information will follow in due time. Key dates: 30 september 2015: deadline for abstract submission 30 october 2015: notification of accepted presentations 4 november 2015: early registration deadline 7-8 december: BBC2015 conference in Antwerpen Location: Elzenveld, Lange Gasthuisstraat 45, 2000 Antwerpen (BE) More information: website: www.bbc2015.be Twitter: @BBC2015AN social media hashtag: #BBC2015AN Linkedin group: http://linkd.in/1a4Gv1T conference email: info(a)bbc2015.be Sponsorship inquiries are welcome at info(a)bbc2015.be We look forward to welcoming you in Antwerpen! on behalf of the organising committee, Kris Laukens -- Advanced Database Research and Modelling (ADReM) University of Antwerp Middelheimlaan 1, G.219, B-2020 Antwerpen, Belgium T +32 (0)3 265 33 10 E kris.laukens(a)uantwerpen.be W www.uantwerpen.be/en/staff/kris-laukens/ Biomedical Informatics research center Antwerpen (biomina) Wilrijkstraat 10, B-2650 Edegem, Belgium W www.biomina.be

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VIB Upcoming Bioinformatics Training Sessions
by Alexander Botzki | VIB | 07 Apr '15

07 Apr '15

Dear all, Please find below the most recent Bioinformatics Training offerings from VIB BITS. Cheers, Alex --------Forwarded message-------- From: BITS <janick.mathys(a)vib.be<mailto:janick.mathys@vib.be>> Date: vr, apr. 03, 2015 at 2:33 PM Subject: Fwd: Upcoming Bioinformatics Training Sessions [VIB] [VIB] VIB Bioinformatics Training May sessions IN THIS ISSUE * Introduction to MySQL<about:blank> * Comparative genomics in eukaryotes<about:blank> * Introduction to the analysis of NGS data<about:blank> * Hands-on introduction to ChIP-Seq analysis<about:blank> Introduction to MySQL This hands-on training provides a comprehensive introduction to relational databases and the use of the MySQL<http://bits.cmail1.com/t/r-l-ctluyuk-shyuuqkd-j/> relational database management system. The training will * show you how to use MySQL to efficiently store your data in databases * give an overview of the SQL syntax that allows you to access and manipulate the data * show you how to use Python to automatically access MySQL databases Requirements: The training is aimed at SQL/database novices. However, for the second day a very basic knowledge of Python programming is required. Date: 4 and 7 May Location: Holiday Inn, Gent Trainer: Gerben Menschaert (BioBix<http://bits.cmail1.com/t/r-l-ctluyuk-shyuuqkd-t/>) More information and registration: VIB website<http://bits.cmail1.com/t/r-l-ctluyuk-shyuuqkd-i/> Comparative genomics in eukaryotes At the end of this training, participants will understand the principles and possible applications of comparative genomics. They will know how comparative genomics is used to: * annotate and characterize gene families * annotate and characterize genomes * transfer information from one species to another * identify transcription factor-binding sites in promoters based on cross-species comparisons Date: 13 May Location: Bio-Accelerator, Gent Trainer: Klaas Vandepoele (PSB<http://bits.cmail1.com/t/r-l-ctluyuk-shyuuqkd-d/>) More information and registration: VIB website<http://bits.cmail1.com/t/r-l-ctluyuk-shyuuqkd-h/> Introduction to the analysis of NGS data This training is an introduction to the Hands-on introduction to ChIP-Seq analysis<http://bits.cmail1.com/t/r-l-ctluyuk-shyuuqkd-k/> training. It is intended for newbies to the field and will teach them all background knowledge required to successfully complete the ChIP-Seq training. To this end the training will give an overview of: * NGS applications and their data analysis workflows * NGS data formats and file handling * Quality control of NGS data * Mapping of NGS data * IT skills required to analyze NGS data: e.g. Linux command line, Galaxy... Requirements: If you registered for the ChIP-Seq training<http://bits.cmail1.com/t/r-l-ctluyuk-shyuuqkd-u/> and you have no experience with NGS data or Linux command line, register for the waiting list of this training. We will try to get you a spot. Date: 22 and 29 May Location: Park Inn, Leuven Trainer: Janick Mathys (BITS<http://bits.cmail1.com/t/r-l-ctluyuk-shyuuqkd-o/>) More information and registration: VIB website<http://bits.cmail1.com/t/r-l-ctluyuk-shyuuqkd-b/> 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. Concretely, you will: * perform a complete analysis workflow including QC, mapping, visualization and peak-calling * use command line and open source software for each each step of the workflow * have an overview of possible downstream analyses * perform a motif analysis with online web programs Requirements: If you have no experience with NGS data or Linux command line, register for the waiting list of the Introduction to the analysis of NGS data training<http://bits.cmail1.com/t/r-l-ctluyuk-shyuuqkd-n/>. We will try to get you a spot. Date: 1 June Location: Park Inn, Leuven Trainer: Morgane Thomas-Chollier (Ecole Normale Superieure, Paris) More information and registration: VIB website<http://bits.cmail1.com/t/r-l-ctluyuk-shyuuqkd-p/> You receive this email because you work at VIB or you have expressed interest in our Bioinformatics training sessions. Feel free to forward this email to interested colleagues. If you do not want to receive this email anymore, you can unsubscribe here<http://bits.cmail1.com/t/r/u/ctluyuk/shyuuqkd/r/>.

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[Gtpb] GTPB Bioinformatics Training Course Announcement/Reminder
by Pedro Fernandes 30 Mar '15

30 Mar '15

(new Deadline) Dear all, The Applications for the PHSMCP15 course, "Promoter hunting and systems modelling of cellular pathways", are now OPEN. IMPORTANT DATES for this Course Deadline for applications: April 9th 2015 <========== NEW Deadline! Latest notification of acceptance: April 3rd 2015 Course date: April 22nd - April 24th 2015 With Alexander Kel and Christoph Wierling Details are available here: http://gtpb.igc.gulbenkian.pt/bicourses/PHSMCP15/ In short: Learn network biology, modelling, pathway analysis. Gene regulatory and signalling networks. Learn how to find promoters in NGS data an how to use genes and promoters to produce inferences at the pathway and system levels. An intensive hands-on, very practical course. Low pre-requisites. Duration: 3 days Course fee: Euro 270.00 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 ----- End forwarded message ----- ----- End forwarded message ----- _______________________________________________ Gtpb mailing list Gtpb(a)igc.gulbenkian.pt https://lists.igc.gulbenkian.pt/mailman/listinfo/gtpb

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International Chemical Discovery & Design Course, 15-26 June 2015, Nijmegen, NL
by Celia.vanGelder＠radboudumc.nl 25 Mar '15

25 Mar '15

International Chemical Discovery & Design Course, 15-26 June 2015, Nijmegen. Course website: http://www2.cmbi.ru.nl/groups/computational-discovery-and-design/icdd2015/ We would like to draw your attention to the 11th annual International Chemical Discovery & Design Course which will be held from 15-26 June 2015 at the Radboud University Nijmegen. This course covers the recent advances in discovery informatics, with a focus on the application to real life problems. The course, combining practicals and lectures, will introduce and discuss different scientific concepts as well as providing an opportunity to gain practical experience using industry standard software. You can expect lectures and practicals on the following topics: * Introduction to Computational Discovery & Design * Comparative Protein Modelling * Sequence Retrieval, Analysis and Alignment Techniques * Computational Medicinal Chemistry; Molecular Descriptors & Library Design * The Application of Computational Drug Design to Real Life Problems * Molecular Docking and Virtual Screening * Advanced 3D Database Searches and Scaffold Hopping * QSAR and COMFA methods * Structure Based Drug Design Techniques The course is targeted to MSc students, PhD students and post-docs. A basic background in bioinformatics or computational chemistry is a prerequisite for attendance. Registration via email to Barbara van Kampen<mailto:barbara.vankampen@radboudumc.nl>. Please, provide information about your background and your motivation to participate in the course. The course is free. You should however pay for travelling and lodging expenses yourself. Best regards Tina Ritschel (CDD/CMBI/Radboudumc Nijmegen) Celia van Gelder (CMBI/Radboudumc & BioSB/NBIC) Dr. Celia W.G. van Gelder Education Manager NBIC/BioSB Coordinator Education CMBI Programme Manager Learning DTL/ELIXIR-NL tel. +31-(0)24-3666120 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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ICBO 2015: Call for Early Career Submissions, due April 13th
by Francisco Couto 24 Mar '15

24 Mar '15

http://icbo2015.fc.ul.pt/callearly.html The ICBO Early Career Track offers a venue for students and early career researchers and practitioners to present work relevant to the conference aims and topics. ICBO 2015 is soliciting submissions of novel (not previously published nor concurrently submitted) research papers in the areas of the application of ontologies to biomedical problems, ontology design and ontology interoperability, at any stage in the process from data creation to use in applications or scientific analyses. Eligibility criteria for submission to the Early Career Track are as follows: - the author or the first author is either a) a student (undergraduate, graduate) or b) within 5 years of their first industrial or postdoctoral academic appointment - the submission is in the form of an extended abstract - the length of the submission is 2 pages maximum following the conference’s paper preparation guidelines (see the conference’s author instructions for further details). It is essential that presenters satisfy the first of the above criteria. Submissions through the main conference's EasyChair: https://www.easychair.org/conferences/?conf=icbo2015 Selecting “Early Career” in the Topics list. Original submissions to the Early Career Track are encouraged. However, work presented in a submission rejected from the main conference track may be presented in a submission to the Early Career Track provided the eligibility criteria are satisfied. Additional information: Final versions of accepted abstracts will be published within a dedicated section of the conference proceedings. A Best Early Career Paper Award will be selected by the Organising Committee and conferred to the author(s) at the conference. Important dates - Apr 13: Submission - May 11: Author notification - May 25: Camera-ready for accepted contributions - Jul 29-30 (tbd): Early Career Track at ICBO For more information, please contact icbo2015(a)googlegroups.com, indicating "[icbo2015] Early Career Track" in the subject line.

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International Chemical Discovery & Design Course, 15-26 June 2015, Nijmegen, NL
by Celia.vanGelder＠radboudumc.nl 24 Mar '15

24 Mar '15

International Chemical Discovery & Design Course, 15-26 June 2015, Nijmegen. We would like to draw your attention to the 11th annual International Chemical Discovery & Design Course which will be held from 15-26 June 2015 at the Radboud University Nijmegen. This course covers the recent advances in discovery informatics, with a focus on the application to real life problems. The course, combining practicals and lectures, will introduce and discuss different scientific concepts as well as providing an opportunity to gain practical experience using industry standard software. You can expect lectures and practicals on the following topics: * Introduction to Computational Discovery & Design * Comparative Protein Modelling * Sequence Retrieval, Analysis and Alignment Techniques * Computational Medicinal Chemistry; Molecular Descriptors & Library Design * The Application of Computational Drug Design to Real Life Problems * Molecular Docking and Virtual Screening * Advanced 3D Database Searches and Scaffold Hopping * QSAR and COMFA methods * Structure Based Drug Design Techniques The course is targeted to MSc students, PhD students and post-docs. A basic background in bioinformatics or computational chemistry is a prerequisite for attendance. Registration via email to Barbara van Kampen<mailto:barbara.vankampen@radboudumc.nl>. Please, provide information about your background and your motivation to participate in the course. The course is free. You should however pay for travelling and lodging expenses yourself. Best regards Tina Ritschel (CDD/CMBI/Radboudumc Nijmegen) Celia van Gelder (CMBI/Radboudumc & BioSB/NBIC) Dr. Celia W.G. van Gelder Education Manager NBIC/BioSB Coordinator Education CMBI Programme Manager Learning DTL/ELIXIR-NL tel. +31-(0)24-3666120 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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Vacature
by Eelco Franz 24 Mar '15

24 Mar '15

Bio-informaticus Rijksinstituut voor Volksgezondheid en Milieu (RIVM) Functieomschrijving Je doet genomisch onderzoek in onderzoeksprojecten op het gebied van voedsel overdraagbare infecties. Je voert onderzoeken uit, analyseert de resultaten en rapporteert erover aan collega-onderzoekers. Zo draag je bij aan de preventie en bestrijding van ziekten door voedsel in Nederland. Als bio-informaticus maak je omvangrijke genomische databestanden geschikt voor microbiologische risicoanalyses, epidemiologische analyses en populatiegenetica. Je bent medeverantwoordelijk voor het proces van dataverwerking en -opslag en hierbij bewaak je ook de kwaliteit. Daarnaast ben je verantwoordelijk voor het ontwikkelen of testen van software op het gebied van bio-informatica binnen de context van het onderzoeksvraagstuk. Bovendien bevorder je de verbreding en ontwikkeling van kennis over bio-informatica en de toepassing daarvan binnen ons centrum. Tot slot onderhoud je contacten met professionals binnen het werkterrein. Functie-eisen Je hebt een academische of hbo-opleiding in een relevante richting afgerond. Je hebt aantoonbare kennis van of interesse in het analyseren van omvangrijke genomische databestanden met een relatie naar microbiologie, epidemiologie en/of populatiegenitica. Je hebt ervaring met laboratoriumonderzoek, bij voorkeur met moleculaire methoden. Je hebt ervaring met het schrijven van wetenschappelijke publicaties en rapportages. Je hebt een proactieve, flexibele instelling en kunt goed werken in teamverband. Je functioneert goed onder werkdruk. Arbeidsvoorwaarden Arbeidsvoorwaarden van de vacature Salarisniveau schaal 10 Salaris Min ?2396 - Max ?3852 bruto per maand Dienstverband Tijdelijke aanstelling voor de duur van project / traject / werkzaamheden Contractduur 1 jaar Maximaal aantal uren per week 36 Overige arbeidsvoorwaarden Bovenop het salaris en vakantiegeld kun je rekenen op een eindejaarsuitkering, de zogenaamde 13e maand. De Rijksoverheid hecht sterk aan persoonlijke groei en loopbaanontwikkeling en biedt daarvoor tal van mogelijkheden. Tot de secundaire arbeidsvoorwaarden behoren onder meer maximaal 55% betaald ouderschapsverlof (onder voorwaarden), studiefaciliteiten, een extra verlofregeling voor ouderen en een vergoeding woon-werkverkeer. Bij de Rijksoverheid heb je een aantal individuele keuzemogelijkheden bij het samenstellen van je arbeidsvoorwaardenpakket. Meer informatie over de vacature de heer dr. E. Franz, projectleider030 - 274 3926 de heer dr. H.J.M. Aarts, hoofd van de afdeling Voedsel030 - 274 3008 Meer informatie over de sollicitatieprocedure Linda de Greef030 - 274 3682vacature(a)rivm.nl Tina van Beek030 - 274 3056vacature(a)rivm.nl ------------------------------------------------------------------------------ Dr. E. (Eelco) Franz (PhD) National Institute for Public Health and the Environment (RIVM) Centre for Infectious Disease Control (CIb) P.O. Box 1, 3720 BA Bilthoven, the Netherlands Email: eelco.franz(a)rivm.nl Tel.: +31302747063 Fax: +31302744434 One day per week at: Wageningen University & Research Centre Laboratory of Food Microbiology P.O. Box 8129, 8700 EV Wageningen, The Netherlands Tel. secrerary: +31 317 482887 ------------------------------------------------------------------------------ Proclaimer RIVM http://www.rivm.nl/Proclaimer

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Course on Structural Modelling for Large Macromolecular Complexes, April 27-30, Portugal
by Barbara.vanKampen＠radboudumc.nl 24 Mar '15

24 Mar '15

Dear NSBM contact, May I please announce this course: SMLMC15 Course Oeiras, Portugal April 27th-30th 2015 Structural Modelling for Large Macromolecular Complexes http://gtpb.igc.gulbenkian.pt/bicourses/SMLMC15/ With best regards Barbara van Kampen --- Barbara van Kampen Operational manager CMBI 260 Radboud university medical center / RIMLS CMBI Office / Room 0.02 PO Box 9101 Geert-Grooteplein 26-28 6500 HB Nijmegen 6525 GA Nijmegen Phone: +31(0)24 36 19390 Fax: +31 (0)24 36 19395 www.cmbi.ru.nl 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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Gut Phageomics: Post-doc and Research Fellow positions
by Claesson, Marcus 24 Mar '15

24 Mar '15

Bioinformatics positions open at the Alimentary Pharmabiotic Centre, Cork, Ireland http://www.ucc.ie/en/hr/vacancies/research/full-details-540195-en.html http://www.ucc.ie/en/hr/vacancies/research/full-details-540205-en.html http://www.ucc.ie/en/hr/vacancies/research/full-details-540208-en.html -- Marcus J Claesson, PhD Lecturer, Department of Microbiology University College Cork Western Road, Cork, Ireland Tel: +353-(0)21-4901390 Email: m.claesson(a)ucc.ie

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from big data to bedside: registration deadline extended until Thursday 26th of March
by Katleen De Preter 24 Mar '15

24 Mar '15

Dear colleague, Three more days to register for the symposium: "From big data to bedside: translational bioinformatics in cancer research". The full program of the symposium organised in Ghent on the 2nd of April 2015 is available at http://bigdata.cmgg.be/. Several international and national top-speakers will attend and present their data (check website for abstracts). You can register via http://bigdata.cmgg.be until March 26 (seats are limited, registration fee = € 50). organiser: Katleen De Preter co-organisers: Frank Speleman, Jo Vandesompele, Pieter Van Vlierberghe, Pieter Mestdagh speakers: Stefan Pfister (DKFZ, Heidelberg) John Quackenbush (Dana Farber, Boston) Jinghui Zhang (St Jude, Memphis) Aravind Subramanian (Broad, Boston) Julio Saez-Rodriguez (EBI-EMBL, Hinxton) Diether Lambrechts (VIB-KUL, Leuven) Pieter Peeters (J&J, Beerse) Lieven Annemans (UGent, Gent)

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