- BBClist - maillist.psb.ugent.be

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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Closing soon: PhD positions in Bioinformatics and Biophysics and Junior Teacher Bioinformatics
by Sanne Abeln 20 Apr '20

20 Apr '20

Dear All, Please find information below about two PhD position and one junior teaching position in our group the VU Amsterdam: 1) in Bioinformatics and Neurochemistry and 2) in Biophysics and Molecular Modelling and 3) a junior teacher in Bioinformatics. The PhD positions are part of a large european collaborative project, MIRIADE <https://miriade.eu/>, aiming for novel approaches in biomarker discovery for dementias. More information on the position in Bioinformatics and Neurochemistry can be found here: https://workingat.vu.nl/ad/miriade-esr2-phd-position-in-bioinformatics-and-… *closing date: 30-04-2020* More information on the position in biophysics and molecular modelling can be found here: https://workingat.vu.nl/ad/miriade-esr3-phd-position-in-biophysics-and-mole… *closing date: 30-04-2020* More information on the *Junior Teacher in Bioinformatics* position can be found here, it is a position that is suitable if you have just finished an MSc in Bioinformatics: https://workingat.vu.nl/ad/junior-teacher-bioinformatics/q8x4y5 *closing date*: *30-04-2020* Candidates for the PhD positions: - Must not already hold a PhD; - Must be within the first four years (full-time equivalent) of their research career; - Must not have resided or carried out their main activity (work, studies, etc.) within the Netherlands for more than 12 months in the three years immediately prior to their recruitment. Best wishes, Sanne -- Sanne Abeln Associate Professor Bioinformatics - VU University Amsterdam s.abeln(a)vu.nl +31 20 59 87816 www.few.vu.nl/~abeln

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— ISMB goes virtual – CompMS call for proposals —
by Wout Bittremieux 11 Apr '20

11 Apr '20

Dear colleagues, Due to COVID-19 the ISMB 2020 conference will take place 100% online using a virtual platform. Join us online for the Computational Mass Spectrometry (CompMS)COSI session on July 15, 2020. With COVID-19 disrupting the world as we know it, we know how important it is to continue the exchange of science in these trying times. Therefore, the ISMB conference, the world's largest bioinformatics/computational biology conference, is going virtual so that you can still enjoy all of our great scientific content. We hope that you will take advantage of this situation by sharing your work with colleagues all over the world. The CompMS COSIpromotes the efficient, high quality analysis of mass spectrometrydata through dissemination and training in existing approaches and discussion of new, innovative approaches. The CompMS initiative aims to exploit synergies between different application domains, in particular proteomicsand metabolomics. Date: July 15, 2020 (CompMS COSI) / July 13–16, 2020 (ISMB) Website: https://www.iscb.org/ismb2020 Key dates April 16, 2020: Abstract submission deadline May 14, 2020: Talk/poster acceptance notifications May 28, 2020: Late poster submission deadline June 4, 2020: Late poster acceptance notifications July 13–15, 2020: virtual ISMB conference Call for proposals Submit your abstract to ISMB to present your work to a global bioinformatics/computational biology audience. Attend the virtual CompMS session to learn about the latest algorithmic advances in mass spectrometry-based proteomics and metabolomics. Please remember to select the CompMS COSI as your session of interest upon submitting your abstract. Call for abstracts: https://www.iscb.org/ismb2020-submit/abstracts The CompMS organizing committee. Wout Bittremieux Oliver Kohlbacher William Stafford Noble Timo Sachsenberg Olga Vitek

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IRIBHM PhD Programme 2020. Update
by Vincent Detours 08 Apr '20

08 Apr '20

Dear Colleagues Due to COVID19, application date of our 2020 PhD program is extended to June 30th. Could you please circulate this new poster through your network. Thanks a lot, Vincent Detours, Ph. D. https://iribhm.org/v-detours/ IRIBHM - Université Libre de Bruxelles Bldg C, room C.4.116 ULB, Campus Erasme, CP602 808 route de Lennik B-1070 Brussels Belgium Phone: +32-2-555 4220 Fax: +32-2-555 4655 Skype: vdetours E-mail: vdetours at ulb.ac.be

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The Swedish Elixir node is looking for 1--2 Data Stewards
by Bengt Persson 31 Mar '20

31 Mar '20

Dear all, The Swedish Elixir node is looking for a Data Steward. Deadline is 20 April. More details are available at: https://uu.se/en/about-uu/join-us/details/?positionId=320306 All the best, Yours, Bengt Persson Head of Node Elixir-SE -- Bengt Persson, M.D., Ph.D. Professor of Bioinformatics Director of NBIS (National Bioinformatics Infrastructure Sweden) Science for Life Laboratory Uppsala University & Karolinska Institutet Telephone: +46 18 471 4422 Mobile phone: +46 70 425 0230 Facsimile: +46 18 530 396 E-mail: bpn(a)icm.uu.se<mailto:bpn@icm.uu.se>, bpn(a)nbis.se<mailto:bpn@nbis.se>, bengt.persson(a)ki.se<mailto:bengt.persson@ki.se> Addresses: Uppsala University | Karolinska Institutet SciLifeLab | SciLifeLab ICM -- Department of | MBB -- Department of Medical Cell and Molecular Biology | Biochemistry and Biophysics BMC, room C10:308c | House Gamma, level 6, G6613 Box 596 | Box 1031 S-751 24 Uppsala, SWEDEN | S-171 21 Stockholm, SWEDEN När du har kontakt med oss på Uppsala universitet med e-post så innebär det att vi behandlar dina personuppgifter. För att läsa mer om hur vi gör det kan du läsa här: http://www.uu.se/om-uu/dataskydd-personuppgifter/ E-mailing Uppsala University means that we will process your personal data. For more information on how this is performed, please read here: http://www.uu.se/en/about-uu/data-protection-policy

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online open Software Carpentry workshop on April 14-17
by Mateusz Kuzak 31 Mar '20

31 Mar '20

Dear all, The Netherlands eScience Center is organising a Software Carpentry workshop on April 14-17. As a consequence of the social distancing measures applied to counteract the covid-19 spread, we have decided to host the workshop entirely online. To accommodate parents and those taking care of their families or having other responsibilities, we decided to spread out the workshop over four consecutive mornings. The workshop covers (i) introduction to Unix shell, (ii) version control with git and collaboration on GitHub, (iii) introduction to exploratory data analysis in Python with the use of Jupyter notebooks. The workshop is free of charge, but it is limited to 20 participants (first come, first served). Please find the schedule and more information on the workshop website and register via the Eventbrite. kind regards, Mateusz

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2 phd positions @BIOBIX, Ghent University
by Tim De Meyer 30 Mar '20

30 Mar '20

Dear colleagues, please find in attach 2 vacancies for bioinformaticians / omics data analists @ the BIOBIX lab of Ghent University, focusing on allele-specific studies in big RNA-seq data (100s of samples), one in the medical (cancer) and one in the applied biological (herbivore adaptation to novel hosts as well as pesticides) fields. Please distribute within your network & to potentially interested students. Best regards, Tim De Meyer Associate Professor BIOBIX Lab. of Bioinformatics and Computational Genomics BIG N2N & CRIG Dept. Data Analysis & Mathematical Modelling Faculty of Bioscience Engineering - Ghent University - Belgium Tim.DeMeyer(a)UGent.be +3292645987 www.biobix.be <http://www.biobix.be/> https://scholar.google.be/citations?user=OrDlWKsAAAAJ

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