- BBClist - maillist.psb.ugent.be

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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PhD position - modeling integrin-cell interactions
by Carlier, Aurélie (MERLN) 25 May '19

25 May '19

Dear all, If you know interesting candidates for this modeling position, feel free to forward! https://www.academictransfer.com/nl/54915/modeling-life-at-the-cell-matrix-… Best wishes Aurélie [Lustrumlogo 2016] MERLN Institute for Technology-Inspired Regenerative Medicine dr. Aurélie Carlier Assistant Professor a.carlier(a)maastrichtuniversity.nl <mailto:a.carlier@maastrichtuniversity.nl> M +31 (0)6 39 60 21 38 Universiteitssingel 40, 6229 ER Maastricht / Room C3.577 PO Box 616, 6200 MD Maastricht http://merln.maastrichtuniversity.nl<http://merln.maastrichtuniversity.nl/> https://sites.google.com/view/aureliecarlier/homepage https://be.linkedin.com/in/aureliecarlier

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Job posting: Postdoc in Environmental Genomics & bioinformatics
by Filip Volckaert 25 May '19

25 May '19

Dear all, Please find attached and at the bottom of this message our latest open position for the Genomics Core and Department of Biology at the KU Leuven. We would appreciate it if you could post this up in your job portals. Please do not hesitate to contact me if in need of further assistance. Thank you! Kind regards Filip Volckaert Professor of marine ecology and evolution Laboratory of Biodiversity and Evolutionary Genomics KU Leuven Ch. Deberiotstraat 32, box 2439 B-3000 Leuven, Belgium Phone: +32 16 32 39 72 Fax: +32 16 32 45 75 Email: filip.volckaert(a)kuleuven.be URL: bio.kuleuven.be/eeb/lbeg Skype: filipvolckaert1 Postdoctoral fellow in Blue Biotech The Department of Biology and The Genomics Core of the KU Leuven are currently looking for a postdoctoral fellow in Environmental genomics & bioinformatics to lead independent population genomic research and develop ESFRI-EMBRC bioinformatics services. The successful candidate will join two international teams that study the molecular evolution of marine organisms and develop analytical tools for NGS data for research purposes, and transitions them to/towards marine scientists. The successful candidate will focus on independent scientific research in evolutionary genomics and the development of bioinformatic toolkits for external users. We also offer the possibility to develop our ongoing consultancy in marine genomics. We are looking for a motivated and scientifically excellent candidate in environmental genomics/ bioinformatics with a problem-solving attitude to work in a collegial environment pervaded with intellectual rigor. Strong communication skills complemented with innovative and analytical thinking are important assets. Applicants must hold a PhD in a related field such as (Applied) Biology, Bioinformatics or Computational Biology. The individual we are looking for will have to be confrontable with common bioinformatics software and programming languages (Python, Perl, Java, R), and be highly motivated to solve biological problems. The successful applicant will also be adapting and implementing existing bioinformatics pipelines in an automated cloud-based analysis platform to make these algorithms available for marine biological and other fundamental biological questions. The candidate will also have an opportunity for the teaching and mentoring of students. We look forward to receiving a motivation letter (max. 1 page), short CV (max. 3 pages), a scientific achievements track-record (max. 2 pages) including a list of your five most important publications, and three names of referees. We offer an initial 18 Months contract (extendable with national or EU funds) a competitive salary and interactive work environment in collaboration with the European Marine Biological Resource Center (www.embrc.eu<http://www.embrc.eu>), a well-established marine research team (bio.kuleuven.be/eeb/lbeg) and the largest Genomics Service core (www.genomicscore.be<http://www.genomicscore.be>) in Belgium. KU Leuven is a research-intensive, internationally oriented university that has been elected Europe's most innovative university by Reuters and consistently ranks and features in Europe's top-15 universities within the Times Higher Education ranking. Leuven is a historic, dynamic and lively city located in the heart of Belgium, within 20 min from Brussels, the capital of the European Union, and less than 2 h from Paris, London and Amsterdam. Working site: Leuven, Belgium Application deadline: The application must be sent as a single PDF by email to conny.coeckelberghs(a)kuleuven.be with as subject 'eGenomics/bioinformatics postdoc position' by midnight June 25th 2019. For further information contact dr. Gregory Maes, phone +32 16 37 25 22, gregory.maes@ kuleuven.be<mailto:gregory.maes@%20kuleuven.be> and/or prof. Filip Volckaert, phone: +32 16 39 72, filip.volckaert(a)kuleuven.be<mailto:filip.volckaert@kuleuven.be>.

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Job posting: Postdoc in Computational Biology
by Loh-Bode, Yen Lee 22 May '19

22 May '19

Dear person-in-charge, Please find attached our latest open position for the Department of Computational Biology for Infection Research. We would appreciate it if you could post this up in your job portals. Please do not hesitate to contact me if in need of further assistance. Thank you! Kind regards / Beste Grüße, Annie Loh-Bode Assistant to the Head of Department (Prof. Alice McHardy) Computational Biology for Infection ResearchDe Email: yenlee.loh-bode(a)helmholtz-hzi.de Tel.: +49 (0)531 391-55270 Braunschweig Integrated Centre of Systems Biology (BRICS) Rebenring 56, 38106 Braunschweig Helmholtz Centre for Infection Research GmbH (HZI) Inhoffenstrasse 7, 38124 Braunschweig ________________________________ 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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GCC2019 Early Registration ends this Friday
by Frederik Coppens 15 May '19

15 May '19

Hello All, An update on the 2019 Galaxy Community Conference: 1. A (final) reminder that *early registration* <https://galaxyproject.org/events/gcc2019/registration/> for the 2019 Galaxy Community Conference *ends this Friday night*, 17 May, at midnight Freiburg time (CEST / GMT +2). After that registration goes up by ~ 60%. So, register this week! 2. All accepted speakers have been notified and talks are being added to the schedule <https://gcc2019.sched.com/> as presenters confirm. There were far more talk submissions this year than in any previous year and that is reflected in the breadth and quality of the accepted talks. 3. *Poster and demo submission <https://galaxyproject.org/events/gcc2019/abstracts/> is still open!* However, space *will* fill up and when it's gone, it's gone. Got something to present? Submit it *soon*. We hope to see you in Freiburg! on behalf of the GCC2019 Organizers ------------------ *2019 Galaxy Community Conference (GCC2019) *1-8 July, Freiburg, Germany https://galaxyproject.org/gcc2019 ------------------ The 2019 Galaxy Community Conference (GCC2019) will be held 1-8 July in Freiburg, Germany. GCC brings together hundreds of faculty, clinicians, researchers, and students, all working in and supporting data intensive science that is accessible, sharable and reproducible. GCC2019 features oral presentations, lightning talks, posters, demos, birds-of-a-feather gatherings (BoFs), training, a CollaborationFest, and plenty of opportunities for networking. Presentations will cover the full spectrum of Galaxy applications, enhancements and deployments. If you are working in data intensive science then GCC2019 is an ideal conference for sharing your work, learning from others, and finding new collaborators. * Registration *Early registration starts at €49/day for students and postdocs, and €79 / day for other academics and non-profit researchers. Childcare is available and travel fellowships are available as well. Early registration ends 17 May, when rates go up by 60%. So, register early. *About Galaxy *Galaxy (https://galaxyproject.org/) is a platform for data integration and analysis in the life sciences. It enables researchers to build, run, share, and repeat their own complex computational analyses using only a web browser and without having to first learn system administration and command line interfaces. The Galaxy Project is driven by a vibrant community who publish workflows and analyses, wrap new tools, maintain and enhance the source code, provide support, and write documentation and training materials. Galaxy is open-source and freely available, and is deployed in hundreds of organizations, running on everything from laptops through supercomputers to public and private clouds. Over 150 of these platforms are publicly available and can be used with little or no setup. Thousands of tools have been ported to Galaxy ("wrapped") and are deployable from the Galaxy Tool Shed. Galaxy was developed to support life science research, but the software is domain agnostic and is now used in domains as diverse as natural language processing, constructive solid geometry, and social science. Frederik Coppens - Project leader & IT manager Applied Bioinformatics And Biostatistics I.T. Support VIB-UGent Center for Plant Systems Biology Ghent University Technologiepark 71 - 9052 Ghent - Belgium Tel. +32(0)9 331 38 12 www.psb.ugent.be <http://www.psb.ugent.be/>

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Job opportunity: computational scientist / bioinformatician at the Bernhard Nocht Institute for Tropical Medicine
by Guy Baele 15 May '19

15 May '19

The Department of Virology at the Bernhard Nocht Institute for Tropical Medicine in Hamburg invites applicants for a position starting as of 15 June 2019 or later for the role: Computational scientist/bioinformatician (m/f/d) You will explore, assess and implement bioinformatics algorithms, analysis pipelines, applications and tools from next generation sequencing (NGS) technologies to improve the bioinformatics analyses capacity of the Virology department of the BNITM. Activities occur with a moderate degree of supervision with latitude for independent judgement. More information concerning the position can be found here: https://www.bnitm.de/fileadmin/media/de/documents/ausschreibungen/Computati… Please send your application by 01.06.2019 with the usual documents (cover letter, high school and university certificates with grades, if applicable references) referring to "Computational scientist" preferably by e-mail in a PDF file to Ms. Jeannette Meurer (bewerbung(a)bnitm.de) or by mail to: Bernhard-Nocht-Institut für Tropenmedizin, Human Resources Department, BernhardNocht-Str. 74, 20359 Hamburg, Germany. For further questions please contact Dr. Sophie Duraffour (duraffour(a)bnitm.de, phone: +49 40 42818-932), Department of Virology -- Guy Baele, Assistant Professor Department of Microbiology and Immunology Evolutionary and Computational Virology Section Rega Institute - KU Leuven Herestraat 49, 3000 Leuven, BELGIUM

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Bioinformatics service position in Cologne
by Andreas Beyer 15 May '19

15 May '19

Dear Colleagues: We are advertising a bioinformatics service position with a specialization in metabolomics/lipidomis data analysis. We greatly welcome your application! Andreas Beyer -- Prof. Dr. Andreas Beyer http://cellnet.cecad.uni-koeln.de/ Phone: +49 221-478 84429

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