- BBClist - maillist.psb.ugent.be

Vacancy Data Management Usability Officer
by Kim DE RUYCK 22 May '20

22 May '20

Dear, One of the key tasks of ELIXIR Belgium is to build a data management and data analysis infrastructure for life sciences research. For data management, we are building on the FAIRDOMhub open source platform. The Belgian instance of [ https://fairdomhub.be/test/ | fairdomhub.be ] is in full development and will allow researchers to manage their research data and produce FAIR data by design. To enforce our data management team, we have an open position for Data Management Usability Officer. [ https://jobso.id/cotq | Find the vacancy here ] . Kind regards, Kim De Ruyck -- Kim De Ruyck PhD Coordinator ELIXIR Belgium VIB, Technologiepark 71, 9052 Gent | +32 (0)9 33 13 694 [ http://www.elixir-belgium.org/ | www.elixir-belgium.org ] [ https://twitter.com/ELIXIRnodeBE | @ELIXIRnodeBE ] [ http://eepurl.com/cl-xOX | Subscribe to our mailing list ]

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PhD position
by Katleen De Preter 19 May '20

19 May '20

Dear all, We would like to inform you about a new job opportunity at the Department of Biomolecular Medicine (UGent) for a PhD student bio-informatician (see attachment) (deadline 15 July, 2020). Please, share this information with potential candidates. For more information, please contact me (katleen.depreter(a)ugent.be) Kind regards, Katleen De Preter prof. dr. ir. Katleen De Preter Department of Biomolecular Medicine Ghent University Medical Research Building (MRB), Corneel Heymanslaan 10 B-9000 Ghent, Belgium

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Virtual ISCB Student Council Symposium 2020
by Wim Cuypers 19 May '20

19 May '20

Dear researcher, We are delighted to announce the 16th ISCB Student Council Symposium (SCS), which will take place 10-11 July 2020 as a completely virtual event. Organized as pre-meeting of the annual ISMB<https://www.iscb.org/ismb2020>, the SCS enables students and young researchers (PhD students & Junior Postdocs) in the fields of Computational Biology and Bioinformatics to connect and build a network within the global computational biology community. Participants have the opportunity to present their work to an international audience and develop important soft skills in an environment that fosters the exchange of ideas and knowledge. This year, we welcome keynote speakers Elana J. Fertig<https://www.scs2020.iscbsc.org/keynote_Elana_J_Fertig> (SKCCC / Johns Hopkins University) and Hamed S. Najafabadi<https://www.scs2020.iscbsc.org/Hamed_S_Najafabadi> (McGill University). Abstract submission<https://www.scs2020.iscbsc.org/abstract-submission> is now open until the 1st of June, both for oral and poster presentations. More details are available at our website<https://www.scs2020.iscbsc.org/>. We would like to thank our sponsor, Harvard Medical School, for supporting the Symposium! The COVID-19 crisis prevents us from gathering physically, but we are convinced that we can reach and unite even more young Computational Biology researchers across the globe with this new and accessible virtual format. We hope that we can count on you to help with this mission, and spread the word! For frequent updates, please check our website<https://www.scs2020.iscbsc.org/>, or connect via twitter<https://twitter.com/iscbsc>. Don't hesitate to contact<mailto:symposium@iscbsc.org> us if you have questions. We look forward to meeting you in July! On behalf of the SCS2020 organising team, Wim SCS2020 Chair Wim Cuypers Adrem Data Lab, University of Antwerp Unit of Tropical Laboratory Medicine, Institute of Tropical Medicine Antwerp Email: wim.cuypers(a)uantwerpen.be<mailto:wim.cuypers@uantwerpen.be> Twitter: @CuypersWim<https://twitter.com/CuypersWim>

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Junior Group Leader in AI for Oncology
by Lodewyk Wessels 04 May '20

04 May '20

Junior group leader in artificial intelligence for oncology The Netherlands Cancer Institute (NKI) is an independent comprehensive cancer center located in the lively city of Amsterdam combining a research institute (NKI) and the Antoni van Leeuwenhoek cancer hospital (AVL) under one roof. The NKI focuses on five research themes: molecular oncology, precision medicine, immunotherapy, survivorship and image guided therapy. All these themes have a strong interest in exploiting the power of AI. We therefore seek outstanding individuals who wish to explore research challenges in oncology through artificial intelligence by employing large collections of medical and research data available at the institute. AI infrastructure The NKI hosts large and diverse collections of medical data from radiology, (molecular) pathology, radiation oncology and quality of life, both from clinical trials and routine treatments. Efficient methods for data retrieval and consent have been established. Various research groups in these disciplines seek active collaboration with an AI expert for biomarker research, automation and prediction. In addition, we expect the successful candidate to develop novel AI methodologies and provide leadership in the application thereof. High performance computing capacity is available both within the institute as well as through a collaboration with the national center for supercomputing Inspiring international atmosphere Approximately 650 researchers are employed in the research laboratories. All of our research meetings are in English and a large number of international post-docs, students and staff members contribute to the open, collaborative atmosphere of the institute. Our cancer hospital treats about 40,000 patients annually and provides excellent opportunities for translational research and implementation of technological innovations. Inviting conditions Conveniently located in the vibrant city of Amsterdam, we provide a stimulating and interactive research environment, use of all state-of-the-art facilities, and a competitive package to start a research group. This includes your own salary, salary for one additional position and, when external funding is not obtained yet, financial support for two additional positions. Junior group leaders will be offered a 5 year appointment. After 4 years they will be evaluated for a tenured position. Further information and applications On this website you can find more information about the institute, its research program, research groups and facilities. You can also contact the Lodewyk Wessels (l.wessels(a)nki.nl) for more information. Applications, including a detailed curriculum vitae and a 2-4 page outline of the research program, should be addressed to the Director of Research, prof. René Medema, and electronically sent to his secretary Marianne van Wieringen-Diepeveen (director(a)nki.nl) Women and minorities are encouraged to apply. Important dates Application deadline: May 22, 2020 Notification of shortlisted applicants: June 4, 2020 Interviews of shortlisted candidates: June 25/26, 2020

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BSC: Life Sciences offer
by BSC Human Resources 29 Apr '20

29 Apr '20

Dear all, We would like to inform you about a new job opportunitiy offered by BSC: - Bioinformatics Data Analyst (RE2). Deadline: 31 May, 2020 Link here <https://www.bsc.es/join-us/job-opportunities/10420lscbre2> We would appreciate that you share the information with your contacts. Sincerely, -- /Human Resources/* Barcelona Supercomputing Center – Centro Nacional de Supercomputación* Tel. +34- 934137745 <mailto:anais.delastre@bsc.es>www.bsc.es <http://www.bsc.es/> http://bsc.es/disclaimer

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BSC STARS postdoctoral programme call until 14th July
by Alba Jene 28 Apr '20

28 Apr '20

Dear, At the Barcelona Supercomputing Center we are looking for 6 outstanding postdoctoral researchers within the STARS COFUND call of the Marie Sklodowska Curie Actions within the Horizon 2020 Programme: https://www.bsc.es/join-us/excellence-career-opportunities/stars. Deadline 14th July 2020. Four of these positions are available at the Life Sciences Department; if you are interested to know more please visit the website, and do not hesitate to contact me if you have any questions/want to know more about the groups offering a position. Best, -- Alba Jené Sanz, PhD Bioinformatics Unit Coordinator Barcelona Supercomputing Center (BSC) <https://maps.google.com/?q=C/+Jordi+Girona+29,+08034-Barcelona,+Spain&entry…> C/ Jordi Girona 29, 08034-Barcelona, Spain http://life.bsc.es/compbio <https://www.bsc.es/sites/default/files/public/newsletter/other/imatge-rrhh.…> Third Call for STARS PROGRAMME APPLICATIONS ! Dear all, We have officially open the Third Call for Applications to our SupercompuTing And Related applicationS Fellows Programme ! See the BSC News: HERE <https://www.bsc.es/news/bsc-news/bsc-will-incorporate-6-outstanding-post-do…> Don´t hesitate to share the information in your network and to apply if you are interested. Deadline for applications: 14th of July 2020 at 11PM CET. You can find more information about the requirements and conditions here: https://www.bsc.es/join-us/excellence-career-opportunities/stars Have a good day, Regards, The HR Team <https://www.bsc.es/> BSC is a public consortium made up of <http://empresa.gencat.cat/> <http://www.ciencia.gob.es/portal/site/MICINN/> <https://www.upc.edu/> <https://ec.europa.eu/regional_policy/en/funding/erdf/> http://bsc.es/disclaimer

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BSC: Life Sciences vacancy
by BSC Human Resources 28 Apr '20

28 Apr '20

Dear all, We would like to inform you about a new job opportunitiy offered by BSC: - Research Engineer (RE2). DeadlMayine: 31 , 2020 Link here <https://www.bsc.es/join-us/job-opportunities/10020lsinbre2> We would appreciate that you share the information with your contacts. Sincerely, -- /Human Resources/* Barcelona Supercomputing Center – Centro Nacional de Supercomputación* Tel. +34- 934137745 <mailto:anais.delastre@bsc.es>www.bsc.es <http://www.bsc.es/> http://bsc.es/disclaimer

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Bioinformatics Community Conference: Abstract submission and registration are open
by Dave Clements 27 Apr '20

27 Apr '20

2020 Bioinformatics Community Conference (BCC2020) Online, July 17-26 https://bcc2020.github.io/ The 2020 Bioinformatics Community Conference (BCC2020) <https://bcc2020.github.io/> will be online, global, affordable, and accessible. Key Dates: May 8: Deadline for submitting talk/poster/demo abstracts <https://bcc2020.github.io/submit/> (this will not be extended) June 6: Authors notified about talk/poster/demo acceptance July 10: Early registration <https://bcc2020.github.io/Registration/> ends July 17-19: BCC2020 Training sessions <https://bcc2020.github.io/training/> July 19-22: BCC2020 Main meeting <https://bcc2020.github.io/schedule/> July 22-24, 24-26: CollaborationFest Core and Encore <https://bcc2020.github.io/cofest/> BCC2020 BCC2020 <https://bcc2020.github.io/> is a joint event bringing together the Bioinformatics Open Source Conference (BOSC) <https://www.open-bio.org/events/bosc/> and Galaxy <https://galaxyproject.org/> Communities. If you are working in data intensive life science research then there is no better event for sharing your work, and learning from other researchers addressing the challenges of modern data driven biology. BCC2020 will be held July 17-26 <https://bcc2020.sched.com/>, and offer 2 days of training <https://bcc2020.sched.com/overview/type/Training>, a 3 day meeting <https://bcc2020.sched.com/overview/type/Meeting>, and a 4 day CollaborationFest <https://bcc2020.sched.com/overview/type/CoFest>. BOSC is organized by the Open Bioinformatics Foundation (OBF) <https://www.open-bio.org/>, a non-profit group dedicated to promoting the practice and philosophy of open source software development and open science within the biological research community. Galaxy <https://galaxyproject.org/> is an open source data integration and analysis platform for the life sciences that is used, deployed, maintained and extended by a worldwide community of researchers, students, software engineers, and infrastructure providers. BCC2020 is Online All BCC2020 events will be held online <https://bcc2020.github.io/blog/going-virtual>. Training will be live and interactive. The meeting will feature keynotes, accepted talks, lightning talks, posters, demos, and birds-of-a-feather and other networking opportunities. Talks (with the possible exception of keynotes) will be pre-recorded. Posters, demos, and BoFs will be live and interactive. The CoFest will also be live and interactive. BCC2020 is Global BCC2020 events will be held twice <https://bcc2020.github.io/blog/going-global>: once in the originally scheduled Toronto time zone (BCC West) <https://bcc2020.sched.com/venue/West>, and then again 12 hours later in the Eastern hemisphere (BCC East) <https://bcc2020.sched.com/venue/East>. Training will differ between East and West, with enrollment open to all, regardless of where you are. The main conference content will be presented in both East and West. We are striving to have the CoFest run continuously <https://bcc2020.sched.com/overview/type/CoFest>, with participants from every part of the world. BCC2020 is Affordable We have slashed registration rates for BCC2020 <https://bcc2020.github.io/Registration/>, and are offering even larger discounts to participants based in low and lower-middle income countries. Pricing starts at US$3 per training session, and $12 for the 3 day meeting. The CoFest <https://bcc2020.github.io/cofest/> is free. BCC2020 is Accessible Going online and global, combined with the low registration rates this enables, makes this the most accessible Galaxy or BOSC conference ever. If you work in open source bioinformatics then this is 2020’s best opportunity to share your work and learn from others. Abstracts Due May 8 BCC2020 is seeking oral presentations, lightning talks, posters, and demos, from researchers working in bioinformatics, and all over the world. Abstracts are due May 8 (and that deadline will not be extended). Please submit your work <https://bcc2020.github.io/submit/> today. Register Now BCC2020 registration is now open <https://bcc2020.github.io/Registration/>. Registering early saves 50% off of the full rates. We hope to see you in July at BCC2020, BCC2020 Organizers -- https://galaxyproject.org/

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Postdoc in Multi-omics data integration for systems vaccinology
by Yvan Saeys 23 Apr '20

23 Apr '20

A joint postdoctoral research position in the area of multi-omics data integration is available between the Saeys lab atVIB <http://www.vib.be/en/Pages/default.aspx>and GSK. The successful candidate will apply state-of-the-art machine learning and statistical tools for integrating several types of omics and classical immune data in the area of vaccine research. About the lab TheSaeys lab <http://www.vib.be/en/research/scientists/Pages/Yvan-Saeys-Lab.aspx>at theVIB-UGent Center for Inflammation Research <http://www.vib.be/en/research/departments/Pages/VIB-UGent-Center-for-Inflam…>studies the design and application of data mining and machine learning techniques for biomedical applications. The lab is renowned for its research on single-cell technologies, including flow and mass cytometry, single-cell RNA sequencing, and is currently pioneering novel single-cell technologies including spatial transcriptomics and single-cell multi-omics (e.g. CITE-seq). GSK is a science-led global healthcare company with a mission: to help people to do more, feel better, live longer. Belgium is the heart of GSK Vaccines, with three major vaccine sites, in Wavre, Rixensart and Gembloux, including the global headquarters from the vaccines division of the group. That also means we represent the largest industrial network of vaccines worldwide. The translational research team in the R&D department focuses on complex immunological questions in order to improve vaccines and vaccine strategies. Your project GSK conducted a clinical research study for exploring in depth the mechanisms of action of adjuvant systems. Adjuvant systems are used to improve vaccine immunogenicity and efficacy by enhancing antigen presentation to antigen-specific immune cells with the aim to confer long-term protection against targeted pathogens. We are interested in applying integrative data analysis approaches to characterize the antibody quality profile measured after vaccination. In this research project the main objectives are two-fold: in a first step we want to perform an exploratory study that integrates different data types to paint a better picture of the antibody quality profile for the different adjuvanted vaccines. In a subsequent analysis we want to link these antibody quality profiles to specific responses in the innate and adaptive immune system using a complementary set of read-outs. Profile * PhD in bioinformatics, computational biology, computer science, bioengineering or similar * Background in data mining, machine learning and statistics * Working proficiency in appropriate programming languages and software (eg. R, Python) * High intrinsic motivation and a strong scientific curiosity. * Willingness to work across academy (VIB-Ghent University) and industry (GSK) * Willingness to work at different locations (Ghent, Rixensart) * Team player that can work independently in a multidisciplinary (international) team. * Excellent oral and written English communication skills. * Proactive, flexible, and problem-solving attitude. We offer * A full-time contract for two years at the interface of a state-of-the-art research institute and a top pharmaceutical company * A stimulating (international, multidisciplinary) research environment where quality, professionalism and team spirit are encouraged. * The ability to work on unique data in the area of systems vaccinology *The position is immediately available.* How to apply? Please apply online via https://vibvzw.jobsoid.com/j/26795/gsk-postdoc-in-multi-omics-data-integrat… Please complete the online application procedure and include a detailed CV incl. list of publications, a motivation letter and the contact information of three referees. For more information contact Yvan Saeys <mailto:yvan.saeys@ugent.be>. For more information: * Website: http://www.vib.be/en/research/scientists/Pages/Yvan-Saeys-Lab.aspx -- =============================================================================== Prof. dr. Yvan Saeys VIB Group Leader Data mining and modeling for biomedicine UGent Department of Applied Mathematics, Computer Science and Statistics Krijgslaan 281, S9, B-9000 Gent Inflammation Research Center, a VIB-UGent Department Technologiepark-Zwijnaarde 71 , B-9052 Zwijnaarde , Belgium Tel : +32(0)9 331 37 40 Fax : +32(0)9 221 76 73 Mailto: yvan.saeys(a)ugent.be http://www.dambi.ugent.be ===============================================================================

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vacancy for an assistent professor bioinformatics @ Utrecht
by Berend Snel 21 Apr '20

21 Apr '20

Dear computational biologists, To strengthen our team and our educational mission, we are seeking a driven and enthusiastic colleague. Are you an ambitious and inspirational educator with a background in bioinformatics, demonstrated teaching experience, and a clear vision on academic education in an international classroom? Do you want to contribute to, and develop new bioinformatics courses, mentor and coach students at levels ranging from BSc to PhD? Besides education you will have the opportunity to be involved in research, either ongoing projects or personal interest. You will be embedded within a diverse and collaborative community of Bioinformatics Teachers and Researchers across the Utrecht Science Campus. For more information and to apply please see: https://www.uu.nl/organisatie/werken-bij-de-universiteit-utrecht/vacatures/… best wishes, Berend Snel, PhD Professor Bioinformatics Theoretical Biology and Bioinformatics Department of Biology Science Faculty Utrecht University Email: b.snel(a)uu.nl

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