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Announcement: Conference Systems Epigenetics - Towards Precision Cancer Medicine, Amsterdam, 27-30 Nov 2018
by Moerland, P.D. (Perry) 11 Sep '18

11 Sep '18

Dear colleagues, I would like to invite you to submit an abstract and register for the upcoming conference on Systems Epigenetics - Towards Precision Cancer Medicine in Amsterdam, 27-30 November 2018. Abstracts on novel methods and applications of computational approaches to the analysis of epigenomics data are especially welcomed. Systems Epigenetics - Towards Precision Cancer Medicine · Date: 27-30 November, 2018 · Location: Amsterdam, the Netherlands · Website: http://www.SystemsEpigenetics2018.eu · Registration: http://systemsepigenetics2018.eu/registration (early bird till September 23) · Call for abstracts (short talks/posters): http://www.systemsepigenetics2018.eu/call-for-abstracts (deadline October 14) We will discuss various aspects of epigenetic regulation (e.g. higher order chromatin folding, chromatin enhancer regulation, dynamics of chromatin and nuclear organization and epigenomics) in the context of cancer initiation, progression and treatment. The latest scientific developments to studying epigenetic regulation will be presented by keynote and invited speakers setting ground for precision medicine in cancer treatment. This conference brings together scientists from multidisciplinary fields employing different research strategies providing a platform for scientists focusing on fundamental and biomedical research, clinicians and private sector scientists. We aim to create a vibrant environment to promote cross-talk between different disciplines. Confirmed speakers Geneviève Almouzni, Institut Curie, FR Jonathan Chubb, University College London, MRC, GB Martin Fussenegger, ETH Zürich, CH Pamela Munster, University of California, San Francisco, US Lucia Altucci, Institute of Genetics and Biophysics, IT Pilar Blancafort, University of Western Australia, AU Tiziana Bonaldi, European Institute of Oncology, SRSI, IT Maria Carmo-Fonseca, Instituto de Medicina Molecular Lisbon, PT Toni Cathomen, University Medical Center Freiburg, DE Luciano Di Croce, Centre for Genomic Regulation, ES Wouter de Laat, Hubrecht Institute, NL Massimo Loda, Harvard Cancer Center, US Luca Magnani, Imperial College London, GB Christoph Plass, German Cancer Research Center, DE Maria Rodriguez Martinez, IBM Research, CH Paola Scaffidi, Francis Crick institute London, GB Vahid Shahrezaei, Imperial College London, GB Henk Stunnenberg, Radboud University Nijmegen, NL Lodewyk Wessels, Netherlands Cancer Institute, NL Call for Abstracts Abstracts can be submitted<http://www.systemsepigenetics2018.eu/call-for-abstracts> for a short talk or poster within one of the following session categories: · Epigenetic regulatory mechanisms: 'State-of-the-art epigenetics' · Epigenetics and clinical cancer: A systems medicine view · Epigenetics and clinical cancer: metabolic reprogramming · Epigenetics, cell heterogeneity and cancer stem cells · Innovative epigenetic interference tools and synthetic biology --- Perry Moerland, PhD Room J1B-210-1 Bioinformatics Laboratory, Department of Clinical Epidemiology, Biostatistics and Bioinformatics Academic Medical Center, University of Amsterdam Postbus 22660, 1100 DD Amsterdam, The Netherlands tel: +31 20 5666945 p.d.moerland(a)amc.uva.nl<mailto:p.d.moerland@amc.uva.nl>, http://www.bioinformaticslaboratory.nl/ ________________________________ AMC Disclaimer : https://www.amc.nl/disclaimer ________________________________

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NETTAB 2018: Call for posters and software demoes - deadline is approaching
by Frederik Coppens 11 Sep '18

11 Sep '18

On behalf of Paolo Romano Dear all, this is reminder that the deadline for the submission of abstracts for posters for next NETTAB 2018 workshop is set to next Sunday September 16, 2018. See the Instructions for authors here below. The NETTAB 2018 workshop, devoted to the FAIR approach, tools, implementations for bioinformatics, has an impressive scientific programme. 10 invited speakers, two tutorials and one satellite event makes this workshop one of the most relevant scientific event on this topic. See the programme at http://www.igst.it/nettab/2018/programme/scientific-programme/ <http://www.igst.it/nettab/2018/programme/scientific-programme/> . Tutorials are listed at http://www.igst.it/nettab/2018/programme/tutorials/ <http://www.igst.it/nettab/2018/programme/tutorials/> . I hope that many of you will take this occasion to present their work and I’m looking forward to meeting you in Genoa soon. All the best. Paolo Romano Frederik Coppens - Project leader & IT manager Applied Bioinformatics And Biostatistics I.T. Support VIB-UGent Center for Plant Systems Biology Ghent University Technologiepark 927 - 9052 Ghent - Belgium Tel. +32(0)9 331 38 12 www.psb.ugent.be <http://www.psb.ugent.be/>

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First Announcement NSBM Fall Meeting
by Nicolaes, G (BIOCH) 10 Sep '18

10 Sep '18

Save the Date [ogo.png] NETHERLANDS SOCIETY ON BIOMOLECULAR MODELLING Fall meeting 3D Protein Structures: what sequences cannot tell you November 16th 2018 Venue: Boothzaal, University Library De Uithof, Utrecht The Netherlands Society on Biomolecular Modelling (NSBM) is an independent society that brings people together in The Netherlands and beyond, that work on three dimensional structures of biomolecules and biomolecular simulations. This is a first announcement of our Fall meeting to which you are cordially invited. During the meeting, the floor will be given to students, PhD students, post-docs and a number of invited guest speakers who study protein structure and/or structural bioinformatics or related topics. Location and dates * Date: November 16th, 2018, 10:00-17:00 * Venue: Boothzaal, University Library De Uithof, Heidelberglaan 3, 3584 CS Utrecht * http://www.uu.nl/universiteitsbibliotheek/locaties<http://www.uu.nl/universiteitsbibliotheek/locaties%20> Deadlines * Registration deadline for posters or to be considered for a short talk: November 5th * Registration deadline (including lunch): November 9th Application procedure * Participants should send an email to register (required but free registration) to: g.nicolaes(a)maastrichtuniversity.nl<mailto:g.nicolaes@maastrichtuniversity.nl> * Submission of an abstract is required if you want to present a poster. * Indicate in your email if you want to be selected for a short oral presentation. Note: The maximum number of participants is limited to 75! So please register on time. Lead contact * Dr. Gerry Nicolaes - g.nicolaes(a)maastrichtuniversity.nl<mailto:g.nicolaes@maastrichtuniversity.nl> http://www.3dstructure-function.nl/nsbm-fall-meeting/<http://www.3dstructure-function.nl/?page_id=912&preview=true> A programme will be sent as soon as possible Costs Attendance is free of charge but registration is required. Lunch and coffee will be provided thanks to the financial support of the Nijmegen Centre for Molecular and Biomolecular Informatics. A flyer is enclosed. With kind regards, Gerry Nicolaes [cid:image001.jpg@01CC2F5C.EA047880] Gerry Nicolaes, PhD Associate Professor Cardiovascular Research Institute Maastricht Biochemistry Department g.nicolaes(a)maastrichtuniversity.nl<mailto:g.nicolaes@maastrichtuniversity.nl> www.maastrichtuniversity.nl <http://www.maastrichtuniversity.nl/> Universiteitssingel 50, 6229 ER Maastricht P.O. Box 616, 6200 MD Maastricht, The Netherlands T +31 43 3881688 F +31 43 3884159 http://www.3dstructure-function.nl<http://www.3dstructure-function.nl/> [cid:image002.jpg@01CC2F5C.EA047880]Please consider your environmental responsibility before printing this e-mail.

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Call for group leader position in computational biology at institut Curie
by Yvan Saeys 09 Sep '18

09 Sep '18

-------- Forwarded Message -------- Subject: call for group leader position in computational biology at institut Curie Date: Sun, 9 Sep 2018 12:31:34 +0200 From: Emmanuel Barillot <Emmanuel.Barillot(a)curie.fr> To: Emmanuel Barillot <Emmanuel.Barillot(a)curie.fr> Dear colleague, We are recruiting group leader in computational biology at institut Curie (see attachment). Could you please spread the word as widely as possible? I also add an URL in case you want to tweet it or share it this way: http://sysbio.curie.fr/texts/Call4GroupLeaderCurieU900-2018.pdf Many thanks for your help Best wishes Emmanuel Barillot - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Dr Emmanuel Barillot Director of U900 Institut Curie - INSERM - PSL Research University / Mines ParisTech: "Bioinformatics and Computational Systems Biology of Cancer" Institut Curie 26 rue d'Ulm 75248 PARIS cedex 05 FRANCE Mail: Emmanuel.Barillot(a)curie.fr

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Data Science Opportunities at Janssen
by Tim Van den Bulcke 07 Sep '18

07 Sep '18

*Data Science Opportunities at Janssen* Janssen Pharmaceuticals, one of the Pharmaceutical Companies of Johnson & Johnson, is accepting applications for their R&D Data Science team. Janssen develops treatments that improve the health and lifestyles of people worldwide. Research and development areas encompass oncology, cardiovascular and metabolic disorders, immunology, neuroscience, and infectious disease, with the ultimate goal of helping people live longer, healthier lives. Janssen has produced and marketed many first-in-class prescription medications and is poised to serve the broad needs of the healthcare market – from patients to practitioners and from clinics to hospitals. To learn more about Janssen, please visit www.janssen.com. The R&D Data Science team within Janssen is looking for outstanding candidates who are interested in designing, developing, and fielding impactful data science solutions. We are a dynamic, accomplished team that supports innovative projects in multiple R&D therapeutic areas, spanning from discovery through late development. For more information about each position and to apply, please visit: · Senior Analyst: https://jobs.jnj.com/jobs/00001DJM · Scientist: https://jobs.jnj.com/jobs/00001DJO <https://jobs.jnj.com/jobs/00001DJO?lang=en-us> · Senior Scientist: https://jobs.jnj.com/jobs/00001DJP Depending on applicant's location and preferences, these positions are open both in Belgium (Beerse) as well as in the United States. Kind regards, Tim Van den Bulcke. Link: https://www.linkedin.com/feed/update/urn:li:activity:6443758701026295808

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Free f-TALES conference on Big Data in Biomedicine - Ghent - 26-27 september 2018
by Laukens Kris 06 Sep '18

06 Sep '18

Dear Colleagues, On 26 and 27 September, we organize a free f-TALES conference on Big Data in Biomedicine in Ghent. Needless to say, this is a big and important topic that is relevant to all of us, and should therefore interest many of you. This conference (did I mention that it was free?) is specifically geared towards PhD students and postdocs, and covers a variety of interesting topics, through inspiring top speakers from all over the world. Moreover, there are 12 slots for selected flash talks by participants, as well as ample poster presentation opportunities. Prizes will be awarded for both top posters as well as top flash talks, so there could easily be something in it for you! Attached you can find the programme, and the link to the conference website and registration, which is also provided below. https://ftales.be/gent-2018/homebigdatabiomedice Importantly, the abstract submission deadline has been extended, so there's still time to submit your abstract! PS: feel free to forward this email to any (or any group of) interested people! PPS: But don't forget to register yourself first; when it's full, it's full :D. Very much looking forward to seeing you at this conference! Kris -- Kris Laukens, PhD Associate professor bioinformatics - biodata mining Advanced Database Research and Modelling (ADReM) Biomedical Informatics Network Antwerpen (biomina) Department of Mathematics and Computer Science University of Antwerp Middelheimlaan 1, G.111 B-2020 Antwerpen, Belgium T +32 (0)3 265 33 10 E kris.laukens(a)uantwerpen.be<mailto:kris.laukens@uantwerpen.be> W www.uantwerpen.be/en/staff/kris-laukens/<http://www.uantwerpen.be/en/staff/kris-laukens/>

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Fwd: Extended Deadline Abstract - Sept 7-, UBC symposium
by Patrick Kemmeren 04 Sep '18

04 Sep '18

For those of you who are interested, we are organizing our fifth Utrecht Bioinformatics Symposium the first of October. There are still places available! Regards, Patrick -------- Forwarded Message -------- Subject: Extended Deadline Abstract - Sept 7-, UBC symposium Date: Tue, 4 Sep 2018 08:59:08 +0000 From: Utrecht Bioinformatics Center <b.vanbreukelen(a)uu.nl> Reply-To: Utrecht Bioinformatics Center <b.vanbreukelen(a)uu.nl> To: p.kemmeren(a)umcutrecht.nl Extended Deadline Abstract - Sept 7-, UBC symposium UBC Announcements View this email in your browser <https://mailchi.mp/328d12ea00bb/extended-deadline-abstract-sept-7-ubc-sympo…> *EXTENDED ABSTRACT DEADLINE* *SEPTEMBER 7th* Send in your poster abstract and and get a chance to win the poster prize Save the date * Sept 13th, SnakeMake workshop: sign up here <https://ubc.us12.list-manage.com/track/click?u=02d188b181bc253cd9b1e5c1b&id…> * Oct 1st, UBC symposium: register here <https://ubc.us12.list-manage.com/track/click?u=02d188b181bc253cd9b1e5c1b&id…> * Nov 5th, UBC seminar Dear all, Please make sure you *send in your abstract* for a poster before september 7th. Based on the submitted abstracts, three abstracts will be selected to give an oral presentation, so this provides you with a great opportunity to highlight what you are working on! We expect an exciting full day program on October 1st, *_with two international keynotes speakers_*, principal investigators from our local community, selected talks from abstracts, posters and of course ample time to mingle with your fellow bioinformaticians! More information and registration: https://ubc.uu.nl/symposium-big-data-in-life-sciences/ <https://ubc.us12.list-manage.com/track/click?u=02d188b181bc253cd9b1e5c1b&id…> Registration is open for everyone, poster abstracts can be submitted by master students (doing a bioinformatics internship), PhDs or Postdocs. So make sure you register and submit your abstract before September 1st, we will also award 150 euro for the best poster! *Two International Keynote Speakers* * *Debora Marks: *Harvard Medical School, well known for her work on predicting 3D protein structures * *Paul Tompson: *University of Southern California, who will talk about the work done within the ENIGMA consortium combining brain imaging with genetics for over 70,000 individuals. *And also...* * *Frank Holstege, *principal investigator*, *coordinating single cell genomics activities within the Princess Maxima Center for pediatric oncology * *Wouter van Solinge**, *involved in ADAM, an applied data analytics for medicine program within the University Medical Center Utrecht. * *Geert Kops, *Hubrecht Insitute/UMCU, group studies the processes involved in chromosome segregation during cell division, with a focus on molecular mechanisms, evolution and chromosomal instability *Registration is free* Read more and Register <https://ubc.us12.list-manage.com/track/click?u=02d188b181bc253cd9b1e5c1b&id…> *Submit your abstract for a poster* Have a chance at winning the poster prize. Submit your poster abstract_ before September 1st_ /Copyright © *|2016|* *|Utrecht Bioinformatics Center|*, All rights reserved./ You are receiving this e-mail because you are a member of the Utrecht Bioinformatics Center. https://ubc.uu.nl Want to change how you receive these emails? You can update your preferences <https://ubc.us12.list-manage.com/profile?u=02d188b181bc253cd9b1e5c1b&id=cc6…> or unsubscribe from this list <https://ubc.us12.list-manage.com/unsubscribe?u=02d188b181bc253cd9b1e5c1b&id…> This email was sent to p.kemmeren(a)umcutrecht.nl <mailto:p.kemmeren@umcutrecht.nl> /why did I get this?/ <https://ubc.us12.list-manage.com/about?u=02d188b181bc253cd9b1e5c1b&id=cc682…> unsubscribe from this list <https://ubc.us12.list-manage.com/unsubscribe?u=02d188b181bc253cd9b1e5c1b&id…> update subscription preferences <https://ubc.us12.list-manage.com/profile?u=02d188b181bc253cd9b1e5c1b&id=cc6…> Utrecht Bioinformatics Center · Padualaan 8 · Utrecht, NH 3584 CH · Netherlands Email Marketing Powered by MailChimp <http://www.mailchimp.com/monkey-rewards/?utm_source=freemium_newsletter&utm…>

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Vacancy Bioinformatician Genome Diagnostics Amsterdam UMC
by Sie, D.L.S. (Daud) 03 Sep '18

03 Sep '18

Dear all, We are recruiting for a bioinformatician in the Genome Diagnostics section of the Clinical Genetics department Amsterdam UMC. Do you want to be part of bringing Next Generation Sequencing to patient care? https://www.werkenbijvumc.nl/vacatures/bioinformaticus-genoomdiagnostiek/ English summary: Our lab focusses on processing and analyzing Next Generation Sequencing data. A fully automated laboratory street, an array of Illumina NGS sequencers and high performance computing infrastructure allows us to efficiently process a large number of samples for patient care. Applications include non invasive prenatal testing (NIPT), deep whole genome sequencing, whole exome sequencing, targeted sequencing and amplicon sequencing. We collaborate intensively with research groups to develop CRIPSR/CAS assays, Liquid Biopsy techniques and RNA-seq applications where bioinformatics support is indispensable. We are recruiting an additional member for our bioinformatics team, currently consisting of 5 people. Your responsibilities include: - Tending to routine diagnostics workflows - Validation and implementation of novel data analysis pipelines and algorithms - Development and maintenance of data analysis pipelines - Development and maintenance of HPC compute and storage infrastructure - Development and maintenance of lab information systems - Development and maintenance of lab robotics systems - Bioinformatics support for clinicians and researchers Your profile includes: - HBO/WO degree in bioinformatics, preferably with relevant work experience - Experience with development and maintenance of analysis pipelines - Experience with scripting languages Python, Bash or PERL - Experience with Unix / Linux - Experience with R / Bioconductor / R Studio - Experience with High Performance Computing (SLURM / SGE) - Excellent communication skills For more information you can contact: Dr. Daoud Sie E: d.sie(a)vumc.nl<mailto:d.sie@vumc.nl> T: +31204442428 Or Dr. Janneke Weiss E: j.weiss(a)vumc.nl<mailto:j.weiss@vumc.nl> T: +31204448355 Kind regards, Daoud Sie, PhD [cid:image001.png@01D3FE70.9A3875A0] Dr. Daoud Sie | Coordinator Bioinformatics | Co-chair HPC Center of Expertise Genome Diagnostics - Department of Clinical Genetics Locatie VUmc | MF-J391 | Van Der Boechorststraat 7, 1081 BT Amsterdam Locatie AMC | K-211 | Meibergdreef 9, 1105 AZ Amsterdam T: (+31)20-4442428 | E: d.sie(a)vumc.nl www.amsterdamumc.nl<http://www.amsterdamumc.nl/> | www.vumc.nl<http://www.vumc.nl/> / www.amc.nl<http://www.amc.nl/> ______________________________________________________ VUmc disclaimer: www.vumc.nl/disclaimer<http://www.vumc.nl/disclaimer> AMC disclaimer: www.amc.nl/disclaimer<http://www.amc.nl/disclaimer>

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POSTDOC: ANT ADAPTATION TO HOT AND ARID AREAS – TRANSCRIPTOMICS DATA ANALYSIS, BRUSSELS
by Matthieu Defrance 30 Aug '18

30 Aug '18

POSTDOC: ANT ADAPTATION TO HOT AND ARID AREAS – TRANSCRIPTOMICS DATA ANALYSIS, BRUSSELS The Evolutionary Biology & Ecology lab (ULB Belgium) and the Interuniversity Institute of Bioinformatics in Brussels (ULB and VUB Belgium) are recruiting a 2-year postdoc researcher to study how desert ants have evolved their extreme degree of thermophily. The project is based on a comparative approach to examine how similar desert conditions have led either to the evolution of convergent traits in different lineages or to the adoption of alternative strategies. The postdoc will use a variety of molecular methods (including but not limited to RNA-seq) to explore the heat-shock responses (HSRs) in ants and will focus on the computational analysis of sequencing data (e.g. RNA-seq de novo assembly, differential expression analysis, clustering). Candidates should have a strong experience with RNA-seq (including library preparation and computational analysis of sequencing data) and must have effective written and oral communication skills, with a demonstrated ability to publish peer-reviewed papers. He/She must have a PhD pending or obtained within the last 3 years in computer science, biology or bioinformatics. The applicant may not have resided or pursued his/her main activity (studies, employment, etc.) in Belgium for more than 24 months during the last 3 years immediately preceding the first period of postdoctoral residence. The post-doc will be based in the the Interuniversity Institute of Bioinformatics in Brussels under direct supervision of Matthieu Defrance (Associate Professor) and Serge Aron (Research Director of the Belgian NSF/ FNRS). He/She will work closely with a PhD student, who will focus on empirical data collection. The position is funded for 2 years. Start date is early 2019. The candidate's salary for the first year will be ~2 450 euros, net of tax; it will increase the second year in accordance with the legal rules in force in Belgium. To apply, please send a cover letter, CV, and names and contact information for three references to Serge Aron (saron(a)ulb.ac.be) and Matthieu Defrance (matthieu.dc.defrance(a)ulb.ac.be) The application deadline is December 1st, 2018. ULB is an Equal Opportunity Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, age, disability, protected veteran status, or any other characteristic protected by law. For more information, please visit the Evolutionary Biology & Ecology lab website (http://ebe.ulb.ac.be) and the Interuniversity Institute of Bioinformatics in Brussels website (ibsquare.be) or contact Serge Aron (saron(a)ulb.ac.be) or Matthieu Defrance (matthieu.dc.defrance(a)ulb.ac.be)

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Fwd: [rsg-belgium] [ELIXIR Belgium workshop] Shell-Git-Python
by Daniele Parisi 24 Aug '18

24 Aug '18

Dear all, We would hereby like to announce an upcoming training in GENT on OCTOBER 24TH AND 25TH, organised by ELIXIR BELGIUM. This two day workshop will aim to teach basic programming skills to PhD researchers in life sciences, who need them to do their research more effectively. The workshop will cover multiple tools, such as SHELL, GIT, and PYTHON. The workshop is FREE OF CHARGE, and sponsored by the ELIXIR-EXCELERATE program. More information is available at the following link: https://orchid00.github.io/2018-10-24-ugent/ Please forward this information to anyone who you think might be interested. With best regards, Daniele Parisi on behalf of Paula Martinez, ELIXIR Belgium trainer -- DANIELE PARISI PhD student at ESAT - STADIUS, Yves Moreau's group President of RSG Belgium Chair of ESCS 2018 Kasteelpark Arenberg 10 - box 01.34 3001 Leuven, Belgium Tel: +32488794394

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