- BBClist - maillist.psb.ugent.be

Master Student - R0
by BSC RRHH 13 Jun '19

13 Jun '19

*Master Student - R0* * * *Context And Mission* To develop novel algorithms on Neoantigen immunogenicity predictions. *Key Duties* * To assist in the new team working in Neoantigen predictions. *Requirements* * Education o Bachelor in Biotechnology, Bioinformatics or related field * Essential Knowledge and Professional Experience o Bioinformatics and python programming * Competences o Team work *Conditions* * The position will be located at BSC within the Life Sciences Department * We offer a full-time contract, a good working environment, a highly stimulating environment with state-of-the-art infrastructure, flexible hours, extensive training plan, tickets restaurant, private health insurance, fully support to the relocation procedures * Duration: Temporary - 1 year renewable * Salary: we offer a competitive salary commensurate with the qualifications and experience of the candidate and according to the cost of living in Barcelona * Starting date: July 1st *Apply here:* https://www.bsc.es/join-us/fellowships/14119lseapmr0 http://bsc.es/disclaimer

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Come join us as a postdoc or PhD student in Bioinformatics at HZI
by McHardy, Alice C. 11 Jun '19

11 Jun '19

Dear all, we are looking for postdocs and PhD students who would like to work with us in the Department of Computational Biology for Infection Research at HZI. More details can be found below and feel free to contact me with questions. https://tinyurl.com/yy6l7z9b Best, Alice McHardy Prof. Alice C. McHardy Computational Biology of Infection Research Helmholtz Centre for Infection Research ________________________________ Helmholtz-Zentrum für Infektionsforschung GmbH | Inhoffenstraße 7 | 38124 Braunschweig | www.helmholtz-hzi.de Vorsitzende des Aufsichtsrates: Frau MinDir'in Prof. Dr. Veronika von Messling Stellvertreter: MinDirig Rüdiger Eichel, Niedersächsisches Ministerium für Wissenschaft und Kultur Geschäftsführung: Prof. Dr. Dirk Heinz; Silke Tannapfel Gesellschaft mit beschränkter Haftung (GmbH) Sitz der Gesellschaft: Braunschweig Handelsregister: Amtsgericht Braunschweig, HRB 477

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Fwd: [Programming-interest] Vacancy Data Steward for Rare Diseases Project at Radboudumc
by Gurnoor Singh 11 Jun '19

11 Jun '19

---------- Forwarded message --------- From: <Koen.tenHove(a)radboudumc.nl> Date: Tue, Jun 11, 2019 at 10:06 AM Subject: [Programming-interest] Vacancy Data Steward for Rare Diseases Project at Radboudumc To: <programming-interest(a)lists.dtls.nl> Dear all, Please find a vacancy for ‘Data Steward for Rare Diseases Project’ below. Could you please spread this to people, in your network, who could be interested (themselves, or might know someone)? https://www.radboudumc.nl/en/vacancies/66621-data-steward-for-rare-diseases… Thanks in advance! Kind regards, *Koen ten Hove* | Data scientist, team Data Stewardship Radboudumc | Information Management | Koen.tenhove(a)radboudumc.nl 06-15508235 - looproute 196 internal website: http://www.radboudumc.nl/intranet/rdl external website: www.radboudumc.nl/datastewardship *Radboud universitair medisch centrum* Postbus 9101, 6500 HB Nijmegen www.radboudumc.nl De informatie in dit bericht is uitsluitend bestemd voor de geadresseerde. Aan dit bericht en de bijlagen kunnen geen rechten worden ontleend. Heeft u deze e-mail onbedoeld ontvangen? Dan verzoeken wij u het te vernietigen en de afzender te informeren. Openbaar maken, kopiëren en verspreiden van deze e-mail of informatie uit deze e-mail is alleen toegestaan met voorafgaande schriftelijke toestemming van de afzender. Het Radboudumc staat geregistreerd bij de Kamer van Koophandel in het handelsregister onder nummer 41055629. The content of this message is intended solely for the addressee. No rights can be derived from this message or its attachments. If you are not the intended recipient, we kindly request you to delete the message and inform the sender. It is strictly prohibited to disclose, copy or distribute this email or the information inside it, without a written consent from the sender. Radboud university medical center is registered with the Dutch Chamber of Commerce trade register with number 41055629. _______________________________________________ Programming-interest mailing list Programming-interest(a)lists.dtls.nl https://lists.dtls.nl/mailman/listinfo/programming-interest -- Thanks & regards, Gurnoor Singh. Laboratory of Plant Breeding, WU Plant Sciences, Netherlands. Tel: +31-636474720

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training in Cloud Computing For Biomedical Researchers.
by Lieven Sterck 06 Jun '19

06 Jun '19

> From: "PHADWAL Kanchan" <Kanchan.Phadwal(a)roslin.ed.ac.uk> > Dear All > American Academy for Biomedical Informatics, Maryland, USA is organising a two > days ( August 6 th and 7 th ) hands on training in Cloud Computing For > Biomedical Researchers. This is aimed at all the Biomedical researchers. For > further details and registration please see the link below. > [ > https://www.eventbrite.com/e/cloud-computing-for-biomedical-researchers-reg… > | > https://www.eventbrite.com/e/cloud-computing-for-biomedical-researchers-reg… > ] > * Save With Early Bird Registration > Best Wishes > Kanchan > The University of Edinburgh is a charitable body, registered in Scotland, with > registration number SC005336.

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two upcoming HPC worskhops for Life Science Researchers
by Mateusz Kuzak 05 Jun '19

05 Jun '19

Dear all, SURFsara in collaboration with ELIXIR-NL and DTL is organising two High-Performance Computing workshops targeted at life science researchers. Both workshops will take place in Utrecht in SURF offices. "Cluster Computing for Life Sciences" is a two-day workshop. On the first day, participants will learn the basics of the Unix shell and how to work on the command line efficiently and how to access resources with more computing power (computer cluster) and run the computations remotely. On the second day, they will learn the basics of Python programming language and build a simple analysis pipeline with Snakemake and execute it on the computer cluster. Website and registration Time and Date: 9 am - 5 pm, 1-2 July, 2019 Location: SURF Utrecht. Kantoren Hoog Overborch (Hoog Catharijne), Moreelsepark 48, room 3.5, 3511 EP Utrecht ------------------------------- "Getting started on the high-throughput data processing platform" Vastly increasing data volumes and data complexity imply that researchers require novel solutions to large scale cluster computing. This workshop aims to provide an introduction and hands-on experience with our new solution to this problem: “a new and versatile platform for high-throughput data processing”. Website and registration Time and Date: 9 am - 5 pm, August 28, 2019 Location: SURF Utrecht. Kantoren Hoog Overborch (Hoog Catharijne), Moreelsepark 48, room 3.5, 3511 EP Utrecht — Mateusz Kuzak Scientific Community Manager | Dutch Techcentre for Life Sciences e-mail: mateusz.kuzak(a)dtls.nl | Tel. +31 643707254 twitter: @matkuzak | GitHub: mkuzak | skype: mkuzak orcid: orcid.org/0000-0003-0087-6021 Visiting address: DTL | Jaarbeurs Innovation Mile (JIM) | 6th-floor Beatrixgebouw Jaarbeursplein 6 | 3521 AL Utrecht

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Cloud developer position Ghent University
by Michiel Van Bel 03 Jun '19

03 Jun '19

Dear all, Ghent University and VIB are looking for a motivated software developer within the ELIXIR life sciences framework. Project The PLAZA platform for comparative, evolutionary, and functional genomics is a data resource that integrates gene and genome information ( [ https://bioinformatics.psb.ugent.be/plaza | https://bioinformatics.psb.ugent.be/plaza ] ). It offers a wide variety of tools to end-users through a web interface, in order to help speed up both small-scale and large-scale data analyses. Multiple independent instances of the platform exist, where each instance either focuses on a different phylogenetic clade, or uses improved gene annotations and genome assemblies compared to previous instances. In order to scale up the building of these instances, we are looking for a software developer to help with moving the PLAZA platform to cloud-based systems. Your tasks: * You are responsible for the design and implementation of the necessary tool-chain for building PLAZA instances in the cloud (e.g. OpenStack, Amazon cloud, Azure, etc.). * You assist with the building of new PLAZA instances, and help with the implementation of unit-tests to check the status and validity of newly build PLAZA instances. * You implement configuration and administration utilities for end-users, to facilitate building PLAZA instances. Profile You hold a degree of Master in computer science, bioinformatics, (bio)engineering, biotechnology or an equivalent degree * Hands-on experience with Linux/Unix environments and BASH scripting * Proficiency in at least one programming language (e.g. Java, Python, …) and one scripting language (e.g. Perl, Python, …) * Good working knowledge of relational databases and SQL How to apply? Click the link below to access the job-portal of Ghent University [ https://career5.successfactors.eu/career?career_ns=job_listing&company=C000… | https://career5.successfactors.eu/career?career_ns=job_listing&company=C000… ] Michiel Van Bel - Postdoctoral fellow Applied Bioinformatics And Biostatistics VIB-UGent Center for Plant Systems Biology Ghent University Technologiepark-Zwijnaarde 71 - 9052 Ghent - Belgium Tel. +32(0)9 331 36 95 [ http://www.psb.ugent.be/ | www.psb.ugent.be ] Genome editing, cutting-edge technology for a sustainable agriculture

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Postdoc position: In silico exploration of microbial community dynamics
by Karoline Faust 31 May '19

31 May '19

Dear all, The Lab of Microbial Systems Biology (http://tinyurl.com/MicrobialSysBio) is looking for a motivated postdoc with a passion for microbial community dynamics. The young lab, started in 2016, is part of the Molecular Bacteriology unit at the Rega Institute and aims at improving our understanding of microbial community structure and dynamics. The postdoc position is funded through an ERC starting grant. Project Microorganisms interact with one another and with the environment, thereby forming complex systems. While a number of mathematical models have been proposed to describe, analyze and predict microbial community dynamics, their application to microbial communities in vitro and in vivo is in its infancy. The Lab of Microbial Systems Biology strives to address this knowledge gap. Thus, the postdoc will focus on model-informed analysis of microbial sequencing data (time series in particular) and/or modelling of synthetic communities, working with data generated in-house and/or in collaborations. Profile The candidate should hold a doctoral degree in an area related to Systems Biology, Theoretical Biology or Bioinformatics and should have strong programming skills. The candidate should also have some background knowledge or at least a strong interest in theoretical ecology. Proficiency in English is necessary, experience with population models is a plus. Interested? Please submit a cover letter, a CV (including publication record) and a list with at least two references (with name, function, email, address and phone number) through the online application tool at https://www.kuleuven.be/personeel/jobsite/jobs/55121641 You can apply for this position until 31st August, 2019. The position will start in December 2019 or January 2020 (at the choice of the candidate). Please do not hesitate to contact me in case of questions. Kind regards, Karoline Karoline Faust --------------------------------------------------- Email: karoline.faust(a)kuleuven.be<mailto:karoline.faust@kuleuven.be> Web: http://tinyurl.com/MicrobialSysBio --------------------------------------------------- Room 7.A130, Rega Institute Laboratory of Molecular Bacteriology Department of Microbiology and Immunology KU Leuven, Campus Gasthuisberg Herestraat 49, postbus 1028 3000 Leuven Belgium ---------------------------------------------------

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Group leader positions, stem cell & development, Copenhagen
by Magali Michaut 31 May '19

31 May '19

Dear all, 2 group leader positions are open at DanStem in Copenhagen, Denmark. It would be great to recruit someone with computational expertise. https://www.nature.com/naturecareers/job/group-leaders-to-danstem-copenhage… <https://www.nature.com/naturecareers/job/group-leaders-to-danstem-copenhage…> Cheers, Magali

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Last call: Data Steward Knowledge and Skills Workshops 11 and 12 June 2019, Utrecht
by Celia van Gelder 31 May '19

31 May '19

Dear colleagues, We are happy to announce that the registration is now open for our two one-day Data Steward Knowledge and Skills workshops on June 11 and 12, 2019 in Utrecht. Registration is free of charge and we hope to welcome many of you there for a working meeting with and for the Data Steward Community! Dates: Two one-day workshops. First one June 11 & the second one on June 12 June 2019. Maximum participants per day: 25. Location: Holland Heart House, Utrecht, <https://www.hollandhearthouse.nl/Routedescription_HHH.pdf> https://www.hollandhearthouse.nl/Routedescription_HHH.pdf Registration: https://docs.google.com/forms/d/e/1FAIpQLSccCFvNqcA-3fmBqelUXN2EMGHUq68W0Xfb BGt46tSOP7Govg/viewform Registration is free of charge. Lunch is included. Time: 10-16 hrs Programme: https://www.dtls.nl/events/data-steward-knowledge-and-skills-workshop/ and https://www.dtls.nl/events/data-steward-knowledge-and-skills-workshop-2/ Target audience Data stewards, data managers, policy makers, HR persons, funders and all other stakeholders that are interested to share their expertise in Data Stewardship, want to get updated about the work that is going on, and want to contribute to the next steps that will be taken. Although the main focus is for the Life Sciences domain, our work on the competencies and skills of the data stewards is rather generic and also useful for other disciplines. Therefore participants from other disciplines are very welcome to join. Goal of the meeting In a ZonMw- funded project where we are working on defining the profession, skills and training needs of Data Stewards in the life sciences. All the output of the project produced so far can be found on <https://zenodo.org/communities/nl-ds-pd-ls/> https://zenodo.org/communities/nl-ds-pd-ls/. It is our ambition to produce tangible outputs, that can be used and implemented in the organisations. To achieve these goals it is crucial to get input from the community. In this way we make further steps in defining community-endorsed outcomes and decide together which next steps are needed to improve data stewardship function descriptions, capacity, visibility, recognition and training. As a data steward, you will meet your peers, expand your network, and will be able to get insight in the current status of Data Stewardship in the Netherlands and beyond. Concept Programme for both June 11 and June 12 Please note that it will be an interactive day, with working sessions and we invite you to bring your own materials with you, for example your current job description, job advertisements from your organisation, the data management policy of your organisation, information about trainings that you have attended and found useful, etc. 9.30 Registration open 10.0 Welcome & Introduction (Celia van Gelder, DTL/ELIXIR-NL) * Introduction of the project * Who is in the audience? 10.30 Working session 1: Your job description & role (Salome Scholtens, UMCG) * Introduction of the Function Matrix and the Venn Diagram for the Data Steward roles * Interactive session to positioning yourself in the Data Stewardship landscape. Do you recognize your own role, what is your position in your organisation, does your job description match our derived function profile? What are you missing? 11.30 Coffee break 12.00 Working session 2: Your knowledge, skills and abilities (Mijke Jetten, Radboud University) * Introduction of the Knowledge, skills and learning objectives * Interactive session in groups to analyze specific parts of the KSA table * Report back from breakout groups. 13.00 Lunch 13.45 Working session 3: Your training * Introduction of the Training related plans * Working session 14.30 Coffee break 15.00 Working session 4: What's next * What are the next steps to be taken by the policy makers in organisations/institutes, funders, HR etc? 15.45 Wrap up * Conclusions of the meeting & next steps 16. 00 End of meeting Best regards on behalf of the project team, Celia Dr. Celia W.G. van Gelder Programme Manager DTL Learning Training Coordinator ELIXIR-NL ELIXIR Training Platform Leader tel. +31613375327 e-mail: <mailto:celia.van.gelder@dtls.nl> celia.van.gelder(a)dtls.nl websites: <https://www.dtls.nl/> https://www.dtls.nl/, <https://www.elixir-europe.org/platforms/training> https://www.elixir-europe.org/platforms/training skype: celia.van.gelder Office: DTL | Jaarbeurs Innovation Mile (JIM) | 6th floor Beatrixgebouw | Jaarbeursplein 6 | 3521 AL Utrecht Postal address: Postbus 8500 | 3503 RM Utrecht While I may be sending this email outside my normal office hours, I have no expectation to receive a reply outside yours.

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Galaxy meets The Carpentries: join our pilot workshop!
by Mateusz Kuzak 28 May '19

28 May '19

Dear all, The Gallantries team is offering its first RNA-seq workshop for beginners on June 11&12. This workshop will be delivered simultaneously at two locations across Europe (Rotterdam, NL and Freiburg, DE). Registration is free, but limited spots are available, first come, first serve! More information about this course can be found here: galaxy-carpentries.github.io/gallantries/event/2019-03-25-first-galantries-workshop/ Please feel free to forward this information in your network. Best regards, Mateusz — Mateusz Kuzak Scientific Community Manager | Dutch Techcentre for Life Sciences e-mail: mateusz.kuzak(a)dtls.nl | Tel. +31 643707254 twitter: @matkuzak | GitHub: mkuzak | skype: mkuzak orcid: orcid.org/0000-0003-0087-6021 Visiting address: DTL | Jaarbeurs Innovation Mile (JIM) | 6th-floor Beatrixgebouw Jaarbeursplein 6 | 3521 AL Utrecht

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