- BBClist - maillist.psb.ugent.be

Vacancy: Computational Immunologist
by Nicola Bonzanni 15 Nov '17

15 Nov '17

Dear All, We are currently looking for a computational immunologist to join our team. More information below or at https://www.enpicom.com/careers/computational-immunologist. Kind Regards, Nicola Bonzanni, CSO ENPICOM | Science Park 402 | 1098 XH Amsterdam www.enpicom.com<http://www.enpicom.com/> +31 (0)20 895 0964 +31 (0)648 913793 WORKING AT ENPICOM ENPICOM is a young, dynamic and expanding biomedical software development company. We use computational biology to build solutions that truly matter and improve people's lives and health. Originally setup in 2015 to create tailored computational solutions for life science, but since 2017 also on a mission to bring innovative products to the market to support the development, guidance and monitoring of immunotherapies. Our first product under development is a T-cell receptor and B-cell receptor repertoire analysis platform. ENPICOM has a strong focus on developing bleeding edge technology, combined with a passion for the well-being of people. Quality, creativity and self-development are our top priorities. We believe in a good work-life balance. We offer flexible working hours, flexibility in organizing your work and an employee stock ownership plan. WE AIM HIGH You are a best-in-class computational immunologist, have a getting the job done mentality, stand for quality and continuous improvement. You don't mind a good discussion on the best solution and are continuously looking for the latest technology and features, all in the interest of the best results. You are a true team player and want to share your knowledge and learn from others, yet you are also perfectly capable of working independently. YOUR ROLE As computational immunologist in our team, you will have a leading role in the development of statistical methods and algorithms for our immune genomics products, but also be involved in our customer projects and academic collaborations. You run the internal validation studies, develop new methods, provide content support to the commercial team, write (white) papers, present at conferences. YOUR PROFILE Required Qualifications: * A PhD in Bioinformatics, Computational Biology or related discipline * Experience in the field of immunology (preferably oncoimmunology) * Experience in the development of statistical methods and algorithms * Hands-on experience with Next-Generation Sequencing data analysis * Proficiency in R and/or Python * An excellent scientific track-record, backed by publications and recommendations * Fluent in English (speaking Dutch is an advantage) Desirable experience: * Experience with projects involving the use of genomics and immune profiling data to identifying candidate targets and biomarkers * Experience with machine learning * Experience in handling multiple projects in parallel * Excellent communication skills LOCATION 's-Hertogenbosch, The Netherlands JUST CONTACT US If you need more information about this job opportunity or are already excited to get on board, mail Dr. Nicola Bonzanni (Chief Scientific Officer) at n.bonzanni(a)enpicom.com<mailto:n.bonzanni@enpicom.com>. We look forward to hearing from you.

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Invitation to CTLS 2018 conference
by Alexander Botzki 13 Nov '17

13 Nov '17

Dear all, On behalf of the organising committee please see the invitation to CTLS 2018 (Core Technologies for Life Sciences 2018) below. After two successful editions of the CTLS conference, VIB is honoured to organize the 2018 conference in the beautiful and historic city of Ghent. CTLS2018@VIB aims to offer core facility staff and those interested in careers as expert scientists an opportunity to learn, network and forge alliances to strengthen core facility science throughout Europe. Over the 4 days of the conference there will be plenary and parallel sessions focusing on all facets of core facility operations, management and specific technologies of interest to core facility staff. Keynote talks will be given by 2001 Nobel laureate Paul Nurse, Frances Weis-Garcia (Past-President of ABRF) and Kurt Vandenberghe Director of Policy Development and Coordination, European Commission. Poster sessions will be held to allow core scientists to present new developments in their technologies and a core facility marketplace area will also be available for facilities to promote their expertise and services. A Belgian beer tasting, guided boat trip through the city’s canals and conference dinner in the old fish market will highlight the social program. The conference is open to all and details can be found on the website, https://vibconferences.be/event/ctls2018vib. A substantial discount (€120) on the registration fees will be given to members of CTLS. See http://www.ctls-org.eu/membership/apply-for-membership/ to join us. Looking forward to welcoming some of you in Ghent. Best regards, Alex Alexander Botzki – Head of VIB Bioinformatics Core | Training Coordinator ELIXIR-BE VIB Bioinformatics Core Rijvisschestraat 126, 9052 GENT, Belgium | +32 9 248 16 00 www.bits.vib.be<http://www.bits.vib.be/> | @vibbioinfocore | https://corefacilities.vib.be<https://corefacilities.vib.be/> [MAIL SIGNATURE - ABLS2] [signatureFooter (002)]

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PhD project @ University of Edinburgh
by Francisco Azuaje 10 Nov '17

10 Nov '17

Dear colleague, We are seeking applicants for a PhD project to be jointly supervised by S. Luz at the University of Edinburgh and me at the Luxembourg Institute of Health (LIH). www.jobs.ac.uk/job/BFO059/3-year-funded-phd-in-biomedical-informatics<http://www.jobs.ac.uk/job/BFO059/3-year-funded-phd-in-biomedical-informatics> Cordially, Francisco. _________________________________ Francisco Azuaje, PhD Principal Investigator, Proteome and Genome Research Unit Luxembourg Institute of Health Department of Oncology 1A-B, rue Thomas Edison, L-1445 Strassen Luxembourg Tel: +352 26970-875 Fax: +352 26970-719 Email: francisco.azuaje(a)lih.lu<mailto:francisco.azuaje@lih.lu> Website: https://www.lih.lu/ [http://files.lih.lu/outlookSignature/lih.jpg] Join us on Facebook and follow our activities on Twitter: https://www.facebook.com/Luxembourg.Institute.of.Health http://twitter.com/LIH_Luxembourg 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. Luxembourg Institute of Health 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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Journée Scientifique Bilille : Working with networks and pathways in molecular biology
by Eva-Maria Krammer 09 Nov '17

09 Nov '17

The Bilille bioinformatics platform organizes, on November 20th, 2017, an afternoon workshop entitled "*Working with networks and pathways in **molecular biology*". This half-day workshop will take place on the campus of the *Institut Pasteur de Lille* (Amphi IBL, 1 rue du professeur Calmette, Metro line 2, station "Lille Grand Palais") from 1.00pm to 6.00pm. Invited speakers: * Marie Beurton Aimar (LaBRI - Equipe Image et Son - Université de Bordeaux). /Visual Exploration of Feasible Pathways through Metabolic Network/ * Guillaume Brysbaert (UGSF - UMR 8576 CNRS - Université de Lille). /An overview of Cytoscape for network biology with a focus on residue interaction networks/ * Martina Summer-Kutmon (BiGCaT, Maastricht University). /From Pathways to Networks: the WikiPathways app for Cytoscape/ * Florence Pinet (Unité d'Epidémiologie et de Santé Publique - Inserm-U1167 - Institut Pasteur Lille). /Integrative network analysis with Cytoscape reveals time-dependent molecular events underlying left ventricular remodeling in post-myocardial infarction patients/ * Aura Ileana Moreno-Vega (Institut Curie - UMR Compartimentation et Dynamique Cellulaire). /Identification of the regulatory network of the tyrosine kinase receptor FGFR3 in bladder cancer/ * Inna Kuperstein (Institut Curie - Department of Bioinformatics and Computational Systems Biology of Cancer). /Atlas of cancer signaling network and navicell: systems biology resources for studying cancer biology/ The program and form for registration are available on the website of the platform: https://wikis.univ-lille1.fr/bilille/networks_2017 Deadline to register: 13th November 2017 (registration is free but mandatory). -- -------------------------------------------- Eva-Maria Krammer Structure et Fonction des Membranes Biologiques CP 206/02 Université Libre de Bruxelles Bld du Triomphe B-1050 Bruxelles Belgium Phone : 32-2-650 2049 Fax : 32-2-650 5382 E-mail: ekrammer(a)ulb.ac.be --------------------------------------------

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BBC 2017 - call for abstract
by Daniele Parisi 09 Nov '17

09 Nov '17

Dear all, the DEADLINE for submitting your work as poster or oral talk at the Benelux Bioinformatics Conference is approaching soon (SUNDAY 5TH NOVEMBER), be sure you won't miss it! Information and free registration on the website https://bbc2017blog.wordpress.com/ Are you interested on the workshop "HANDLE YOUR DATA THE TIDY WAY: DATA SCIENCE USING R AND THE TIDYVERSE"? Find more and register https://bbc2017blog.wordpress.com/workshops/ -- DANIELE PARISI PhD student at ESAT - STADIUS, Yves Moreau's group President of RSG Belgium Board member of PhD Leuven society Kasteelpark Arenberg 10 - box 2446 3001 Leuven, Belgium Tel: +32488794394

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two-year post-doctoral position in computer sciences at INRA
by Karoline Faust 09 Nov '17

09 Nov '17

A two-year post-doctoral position in computer sciences is now opened at INRA-Dijon (France). The post-doctoral scientist will develop logic-based machine-learning algorithms for the reconstruction of microbial networks from metabarcoding datasets. We envision that these algorithms will be very useful to the biocontrol of plant pathogens in the near future, by allowing us to automatically identify candidate biocontrol agents. Plants are associated with a huge diversity of microorganisms that interact. Deciphering these microbial interactions is crucial since they underpin the regulation of plant diseases. These microbial interactions are usually identified using co-culture experiments. This is a tedious and time-consuming process that cannot easily be extended to the whole microbial community with which a pathogen interacts. A current challenge is to reconstruct microbial interaction networks directly from environmental DNA. The purpose of the project will be (1) to develop generic methods for learning microbial interaction networks from metabarcoding data and (2) to demonstrate that these new methods inform biological control of pathogens because they reveal antagonistic interactions between pathogen species and other microorganisms. This proof-of-concept study will be performed using both simulated datasets and real metabarcoding datasets on some major foliar pathogens of grapevine and wheat. The post-doctoral position is part of the BCMicrobiome project funded by the public-private Biocontrol Consortium*. Regular reporting to the Consortium will be requested and there will be an exclusivity period on the results obtained on the real metabarcoding datasets. The post-doctoral researcher will be based in Dave Bohan's lab at INRA-Dijon. He will work in close collaboration with the project's PI (Corinne Vacher, INRA-Bordeaux) and with other ecologists and plant pathologists involved in the project. A three-month stay in the Department of Computing at the University of Surrey will allow the post-doctoral researcher to gain new skills in machine-learning by working in collaboration with Alireza Tamaddoni-Nezhad. Close collaboration with the group of Stéphane Robin (AgroParisTech, Paris), who develops statistical methods of network inference, is also expected. The candidate should ideally have a background in machine-learning and/or statistics, good communication skills, and some interest in ecology and agriculture. Candidates having some experience in the analysis of ecological networks are also welcome to apply. Starting date: between January 2018 and April 2018 Gross salary: 3892 euros per month Contact: David Bohan (david.bohan(a)inra.fr) and Corinne Vacher (corinne.vacher(a)inra.fr<mailto:corinne.vacher@inra.fr>) * http://institut.inra.fr/Partenaires/Entreprises-et-filieres/Tous-les-magazi…

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Job opening: ELIXIR-EXCELERATE Training Impact Coordinator
by Celia van Gelder 06 Nov '17

06 Nov '17

FYI and please spread this vacancy as you see fit. We are looking for a Training Impact Coordinator for ELIXIR-EXCELERATE Training. Location: University of Cambridge, UK. Full description: http://www.jobs.cam.ac.uk/job/15618/ Best Celia Dr. Celia W.G. van Gelder Programme Manager Learning DTL/ELIXIR-NL Training Education Manager BioSB ELIXIR Training Platform Leader tel. +31613375327 e-mail: <mailto:celia.van.gelder@dtls.nl> celia.van.gelder(a)dtls.nl websites: <http://www.dtls.nl/> www.dtls.nl, <http://www.biosb.nl/> www.biosb.nl skype: celia.van.gelder NEW Visiting address (as of 1 July 2017): DTL | Jaarbeurs Innovation Mile (JIM) | 6th floor Beatrixgebouw | Jaarbeursplein 6 | 3521 AL Utrecht NEW Postal address (as of 1 July 2017): Postbus 8500 | 3503 RM Utrecht

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Scienitific day of the Bilille platform : Working with networks and pathways in molecular biology
by Eva-Maria Krammer 26 Oct '17

26 Oct '17

Hello, Bilille, the bioinformatics plateform of Lille, organises an scientific afternoon on le *20 novembre 2017* with the topic "*Working with networks and pathways in molecular biology*". The location of the meeting is *the campus of the Pasteur Institute of Lille* (Amphi IBL, 1 rue du professeur Calmette, Métro line 2 station "Lille Grand Palais"). Invited speakers: * Marie Beurton Aimar (LaBRI - Equipe Image et Son - Université de Bordeaux). /Visual Exploration of Feasible Pathways through Metabolic Network/ * Guillaume Brysbaert (UGSF - UMR 8576 CNRS - Université de Lille). /An overview of Cytoscape for network biology with a focus on residue interaction networks/ * Martina Summer-Kutmon (BiGCaT, Maastricht University). Title to be announced * Florence Pinet (Unité d'Epidémiologie et de Santé Publique - Inserm-U1167 - Institut Pasteur Lille). /Integrative network analysis with Cytoscape reveals time-dependent molecular events underlying left ventricular remodeling in post-myocardial infarction patients/ * Aura Ileana Moreno-Vega (Institut Curie - UMR Compartimentation et Dynamique Cellulaire). Title to be announced The program and the inscription are available on the internet site of the BILILLE Platform: https://wikis.univ-lille1.fr/bilille/networks_2017 Inscription deadline: 14 novembre 2017 (the inscription is free but obligatory). Cellule Animation Scientifique de Bilille -- -------------------------------------------- Eva-Maria Krammer Structure et Fonction des Membranes Biologiques CP 206/02 Université Libre de Bruxelles Bld du Triomphe B-1050 Bruxelles Belgium Phone : 32-2-650 2049 Fax : 32-2-650 5382 E-mail: ekrammer(a)ulb.ac.be --------------------------------------------

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Edinburgh Genomics Bioinformatics workshops for the remainder of 2017: Intro Linux, Intro ChIP-seq, Intro RNA-seq, Intro Linux and Workflows
by Bert Overduin 24 Oct '17

24 Oct '17

Dear all, For the remainder of 2017 we have the following workshops planned, on all of which there are still places left. With kind regards, Bert ********** 1-day LINUX FOR GENOMICS Date: Wednesday 8 November 2017 Registration deadline: Wednesday 25 October 2017 noon Places: 20 (first come, first served) Registration fee: £175 (includes coffee/tea and lunch) Details and registration: http://genomics.ed.ac.uk/services/linux-genomics 2-day INTRODUCTION TO ChIP-SEQ DATA ANALYSIS AND VISUALISATION USING ENSEMBL Date: Thursday 23 & Friday 24 November 2017 Application deadline: Thursday 26 October 2017 noon Places: 12 (selection of applicants) Registration fee: £350 (includes refreshments and lunch) Details and application: http://genomics.ed.ac.uk/services/introduction- chip-seq-data-analysis-and-visualisation-using-ensembl 2-day INTRODUCTION TO RNA-SEQ DATA ANALYSIS Date: Thursday 30 November & Friday 1 Decemberr 2017 Application deadline: Thursday 2 November 2017 noon Places: 12 (selection of applicants) Registration fee: £350 (includes refreshments and lunch) Details and application: http://genomics.ed.ac.uk/services/introduction- rna-seq-data-analysis Note: - if you have applied for this workshop before but were unsuccessful, please mention this in your application 5-day INTRODUCTION TO LINUX AND WORKFLOWS FOR BIOLOGISTS Date: Monday 11 - Friday 15 December 2017 Registration deadline: Monday 27 November 2017 noon Places: 20 (first come, first served) Registration fee: £525 (includes coffee/tea, but no lunch) Details and registration: http://genomics.ed.ac.uk/services/introduction -linux-and-workflows-biologists -- Bert Overduin, PhD TRAINING AND OUTREACH BIOINFORMATICIAN Bert.Overduin(a)ed.ac.uk orcid.org/0000-0002-5281-8838 EDINBURGH GENOMICS The University of Edinburgh Ashworth Laboratories The King's Buildings Charlotte Auerbach Road Edinburgh EH9 3FL Scotland, United Kingdom tel. +44(0)1316507403 http://genomics.ed.ac.uk The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.

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reminder NSBM Fall Meeting November 29th 2017
by Barbara.vanKampen＠radboudumc.nl 20 Oct '17

20 Oct '17

[logo.png]NETHERLANDS SOCIETY ON BIOMOLECULAR MODELLING Fall meeting November 29th 2017 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 that work on three dimensional structures of biomolecules and biomolecular simulations. The NSBM cordially invites you to participate in its 2017 fall meeting in Utrecht. During the meeting, the floor will be given to PhD students and post-docs who study protein structure and/or structural bioinformatics or related topics. Location and dates · Date: November 29th, 2017, 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 to be considered for a short talk: November 17th · Registration deadline (including lunch): November 22nd 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 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> Preliminary Programme · 09:30-10:00 Arrival and coffee · 10:00-10:10 Welcome word · 10:10-11:00 Keynote I o Prof. Jürgen Pleiss, Institut für Technische Biochemie (ITB), Stuttgart University (D) o Data-integrated simulation of enzymes § 11:00-11:20 Short talk selected from abstracts § 11:20-11:40 Short talk selected from abstracts § 11:40-12:10 Lecture o Tom van den Bergh, Bio-Prodict, Nijmegen (NL) 12:10-12:30 Lecture § o Short talk selected from abstracts · 12:30-14:00 Lunch and poster session · 14:00-14:50 Keynote II: o Prof. Chris Ulens, KU Leuven (B). o Allosteric modulation of ligand-gated ion channels · 14:50-15:10 Short talk selected from abstracts · 15:10-15:30 Short talk selected from abstracts · 15:30-16:00 Coffee break · 16:00-16:50 Keynote III: o Dr. Chris de Graaf, VU Computational Medicinal Chemistry group, Amsterdam (NL) o 3D-e-Chem: Structural cheminformatics tools for navigating protein-ligand interaction space 16:50 Closure 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, Barbara van Kampen --- Barbara van Kampen Operational manager CMBI [Radboudumckleine.png] 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 www.cmbi.ru.nl<http://www.cmbi.ru.nl/> The Radboud university medical center is listed in the Commercial Register of the Chamber of Commerce under file number 41055629. 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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