- BBClist - maillist.psb.ugent.be

Bioinformatics Summer School - July 2019 - UCLouvain
by Laurent Gatto 25 Feb '19

25 Feb '19

Dear all, We would like to announce the international bioinformatics summer school that will take place at the UCLouvain, in Louvain-la-Neuve, Belgium, from the 1 - 5 July 2019. This one-week intensive summer school in bioinformatics will focus on data analysis and high throughput biology, with a special focus on R/Bioconductor and its application to a wide range of topics across bioinformatics and computational biology. Participants will benefit from the expertise of renowned experts in the field of omics data analysis. The course is intended for researchers who are familiar with omics experimental technologies and their applications in biology, have had some exposure with R, and who want to learn or expand their bioinformatics skills. The material will cover underlying theory and practical hands-on exercises. At the end of the course, participants should be able to run analysis workflows on their own omics data, adapt and combine different tools and make informed choices about bioinformatics data analysis strategies. The summer school will accept up to 50 participants and offers 20 scholarships to students and early career researchers. Further details, preliminary schedule and registration details are available on the summer school’s webpage at https://uclouvain-cbio.github.io/BSS2019/. On behalf of the organising committee, Laurent Prof Laurent Gatto de Duve Institute - UCLouvain Avenue Hippocrate, 75 - bte B1.74.10 1200 Brussels, Belgium Tel: +32 (0)2 764 74 15 http://lgatto.github.io/

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Postdoc Bioinformatics Vacancy @Amsterdam UMC (AMC)
by Koster, J.J.B. (Jan) 22 Feb '19

22 Feb '19

Dear all, The Bioinformatics team at Oncogenomics is looking for a bioinformatics postdoc to further extend the R2 platform (http://r2.amc.nl) towards personalized genomics applications. https://werkenbijamc.nl/vacatures/bioinformatician-postdoc/ We are looking forward to meet you Jan Koster Ph.D. Group leader Bioinformatics Department of Oncogenomics, M1-132 Academic Medical Center (AMC) University of Amsterdam Meibergdreef 9 1105 AZ Amsterdam the Netherlands Tel: +31 20 56 67536 Mobile: +31 6 49628872 Email: j<https://webmail.amc.nl/owa/r2-support@amc.uva.nl/redir.aspx?SURL=ilk7fUTz3G…>ankoster(a)amc.uva.nl ________________________________ AMC Disclaimer : https://www.amc.nl/disclaimer ________________________________

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Job vacancy @ Amsterdam UMC
by Sie, D.L.S. (Daud) 22 Feb '19

22 Feb '19

Dear all, The bioinformatics team Clinical Genetics Amsterdam UMC is looking for a senior bioinformatics specialist: https://www.werkenbijvumc.nl/vacatures/senior-bioinformaticus-genoomanalyse/ Are you the one to join our team? Let me know if you have any questions. Regards, Daoud [cid:image002.png@01D40E30.3E299A80] Dr. Daoud Sie | Head Bioinformatics | Coordinator Core Facility Genomics Department of Clinical Genetics Location VUmc | MF-J391 | Van der Boechosrtstraat 7, 1081 BT Amsterdam Location AMC | K2-211 | Meibergdreef 9, 1105 AZ Amsterdam T: (+31)20-4442428 | E: d.sie(a)amsterdamumc.nl www.amsterdamumc.nl<http://www.amsterdamumc.nl/> | www.vumc.nl<http://www.vumc.nl/> / www.amc.nl<http://www.amc.nl/> ______________________________________________________ VUmc disclaimer: www.vumc.nl/disclaimer<http://www.vumc.nl/disclaimer> ______________________________________________________ VUmc disclaimer : www.vumc.nl/disclaimer AMC disclaimer : www.amc.nl/disclaimer

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Course Flowcytometrie 2, 9 & 16 April 2019
by Sari van Heel - Vauhkala 22 Feb '19

22 Feb '19

Dear Member of BBClist, We would like to draw your attention to our upcoming course Flowcytometrie that will be organized by the Research Group Analysis Techniques in the Life Sciences in April 2019: Name course: Flowcytometrie, van kalibratie tot applicatie Course date: Tuesday 2, 9 & 16 April 2019 Location: Erasmus MC, Rotterdam Registration fee: €600,- Website: http://www.alsavans.nl/cursussen/avans-training-2541.html The digital registration form is available on our website. Should you have any questions, please do not hesitate to contact us by email at: info.ALS(a)avans.nl<mailto:info.ALS@avans.nl> Kind regards, Ms. Sari van Heel-Vauhkala Secretary Research Group Analysis Techniques in the Life Sciences Breda, the Netherlands

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SCIENTIFIC PROGRAMMER IN DATA VISUALISATION (KU Leuven)
by Vera van Noort 21 Feb '19

21 Feb '19

Vera van Noort (KU Leuven) and Jan Aerts (KU Leuven/UHasselt) are looking for a Scientific programmer in data visualisation. In this project we will build a framework for creating custom visualisations and combining these in a dashboard-setting. The aim is to create the necessary front- and backend to allow for (1) easily creating and incorporating new visual modules (conceptually similar to https://github.com/jandot/bio-graphics) (2) combining these visual modules in a single interface, and (3) incorporating a biological ontology which links biological concepts to features in the visuals. The applicant needs to have demonstrable experience in web-development and software management. This includes strong programming skills in javascript and if possible python, and/or clojurescript. https://www.kuleuven.be/personeel/jobsite/jobs/55033629 For more information please contact Prof. dr. Vera van Noort mail: vera.vannoort(a)kuleuven.be or Prof. dr. ir. Jan Aerts mail: jan.aerts(a)kuleuven.be.

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MOPGP 2019 in the Magical city of Marrakech
by El-ghazali Talbi 21 Feb '19

21 Feb '19

Dear Colleague, I would like to invite you to submit an abstract for the 2019 International Conference on Multiple Objective Programming and Goal Programming (MOPGP) <http://mopgp.org/> in Marrakech, Morocco. Selected extended-abstracts will be considered as potential full-paper publications, subject to peer reviews in Annals of Operations Research (Call for Papers: <http://rutcor.rutgers.edu/CfPMOPGP%202019.pdf>Recent Advances in Multiobjective Optimization <http://rutcor.rutgers.edu/CfPMOPGP%202019.pdf>). The submission Deadline is on May 30, 2019. Thank you in advance and we look forward to welcoming you in the oasis of the magical city of Marrakech. Best regards -- *********************************************************************** MOPGP'2019 Int. Conference on Multiple Objective Programming and Goal Programming 28-31 Oct 2019, Marrakech, Morocco http://www.mopgp.org *********************************************************************** Prof. El-ghazali TALBI Polytech'Lille, University Lille - INRIA CRISTAL - CNRS

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bioinformatics vacancies at UAntwerpen
by Laukens Kris 20 Feb '19

20 Feb '19

Dear colleagues, We have two vacancies in my team at UAntwerpen: (1) a bioinformatics support coordinator https://goo.gl/gU6E3i (2) a doctoral fellowship on plant and soil microbiome bioinformatics. https://goo.gl/1hiU93 Feel free to distribute to potential candidates! Thank you, Warm regards, Kris -- Kris Laukens, PhD Associate professor bioinformatics - biodata mining Adrem data lab Biomedical Informatics Network Antwerpen (biomina) Department of Mathematics and Computer Science University of Antwerp Middelheimlaan 1, G.111 B-2020 Antwerpen, Belgium T +32 (0)3 265 33 10 E kris.laukens(a)uantwerpen.be<mailto:kris.laukens@uantwerpen.be> W www.uantwerpen.be/en/staff/kris-laukens/<http://www.uantwerpen.be/en/staff/kris-laukens/>

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job offer @VIB-UGent : software developer within the ELIXIR life science organization
by Michiel Van Bel 20 Feb '19

20 Feb '19

Software developer (cloud data processing) within the ELIXIR life science organization Context ELIXIR is the European life-sciences infrastructure for biological information. ELIXIR brings together bioinformatic tools, resources and experts into a distributed infrastructure that enables researchers across Europe to share and analyze their life-science research data. This project is in close collaboration with international partners involved in ELIXIR and aligned with initiatives in life-sciences in the context of FAIR data and the European Open Science Cloud. In short, if you’re interested in contributing to building the data research infrastructure for the future for life-sciences, these positions should be of interest to you. We are building a multidisciplinary team, therefore we are looking for talented people with complimentary expertise. Job description 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. As a software developer, * you will be 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 will 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 will implement configuration and administration utilities for end-users, to facilitate building PLAZA instances. You will be integrated in a dynamic research group, under the supervision of the primary developers of the PLAZA platform. Furthermore, you will have regular contacts with academic and industrial collaborators to explore novel technologies and boost new developments. Profile Essential * Bachelor or Master in computer science, bioinformatics, (bio)engineering, biotechnology or equivalent * Proficiency in at least one programming language (e.g. Java, Python, …) and one scripting language (e.g. Perl, Python, …) * Hands-on experience with Linux/Unix environments and BASH scripting * Good working knowledge of relational databases and SQL * Fluent in English, with good communication skills * Willing and able to learn and implement new technologies * Able to work both independently as well as in a team Desirable but not required * Knowledge of web development technologies (PHP, HTML, JavaScript, CSS) * Experience in working with life-science data * Experience with virtualization technologies (e.g. Docker) * Experience with automated deployment tools (e.g. Puppet, Ansible, etc.) * Version control experience (e.g. GIT) We offer * A fulltime position for 2 years initially. This is part of the long-term strategy for funding research infrastructures in Flanders, therefore prolongation is envisaged pending on the successful renewal of the national project. * A challenging and stimulating work environment with opportunities for personal input, at the edge of developments in this area in Europe * Engaging with the large life-sciences network across Europe of ELIXIR * Work place is the VIB-UGent Center for Plant Systems Biology (Ghent, Belgium) More information: [ https://vibvzw.jobsoid.com/j/17167/elixir-software-developer-cloud-data-pro… | https://vibvzw.jobsoid.com/j/17167/elixir-software-developer-cloud-data-pro… ] 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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Position metabolomics support
by Kampen, A.H.C. van (Antoine) 19 Feb '19

19 Feb '19

Job opening: Bioinformatician for metabolomics support Department: Bioinformatics Laboratory Amsterdam UMC (location AMC) Meibergdreef 9 1105 AZ Amsterdam The Netherlands Contact: Prof. dr. A.H.C. van Kampen +31-20-5667096 a.h.vankampen(a)amc.uva.nl Background The Bioinformatics Laboratory is part of the department of Clinical Epidemiology, Biostatistics and Bioinformatics (KEBB) and is involved in bioinformatics and systems biology research, education, and support. Research projects focus on the integrative analysis of (multi-)omics data and the development of computational models to understand immune processes. The bioinformatics core facility is part of the Bioinformatics Laboratory and is one of the AMC facilities that support AMC research groups and provides support for the analysis of omics data. The bioinformatics core facility collaborates with the metabolomics facility that is part of the Laboratory for Genetic Metabolic Diseases for the analysis of UPLC-MS metabolomics/ lipidomics data. As part of this collaboration, a bioinformatics pipeline has been developed in the R/Shiny programming environment for the (pre)processing of the LC-MS data. The candidate will be responsible for the analysis of metabolomics datasets using this pipeline, and will be involved in the improvement and extension of the functionality of the pipeline. In addition, he/she will be involved in tasks to support the activities of the Bioinformatics Laboratory such as user administration of the Unix server and computer/backup support. Candidate profile We are looking for a candidate at HBO/university level: * a strong background in bioinformatics, computer science, or similar; * affinity with metabolomics, chemistry, and biomedical research; * strong programming skills. Knowledge of R and Shiny is a plus; * experience with (statistical) data analysis; * excellent communication and presentation skills; * independent but able to work in a multi-disciplinary team; * proficiency in the English language. Salary/hours The contract for 12 months for 30 hours per week is offered after which a permanent contract is given when the performance is sufficient. The maximum salary is 3837,- euro gross per month (based on full-time position). Application Send your motivation letter and curriculum vitae via https://werkenbijamc.nl/vacatures/bioinformaticus-voor-ondersteuning-metabo… ________________________________ AMC Disclaimer : https://www.amc.nl/disclaimer ________________________________

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Computational Ph.D. positions in the RNAct EU project
by Wim VRANKEN 14 Feb '19

14 Feb '19

Dear all, As part of the RNAct EU MSCA-ITN network, 4 computational Ph.D. positions are available, 2 in Brussels, Belgium, and 2 in Nancy, France, from the 1st of September. In this project, we will use computational methods to aid protein design of RNA recognition motif (RRM) proteins, for further use in synthetic biology and bio-analytics. All 10 RNAct students will be working together towards this goal using a mix of computation and experiment; the work will be very interdisciplinary! Please see the individual descriptions in attachment for more information on each specific position. Best regards, Wim --------------------------------------------------------------------------------------- Prof. Dr. Wim Vranken wim.vranken(a)vub.be Tel: +32 (0)2 6291952 (VUB) http://bio2byte.be/ +32 (0)2 6505943 (IB^2) Building E, 5th Floor, E5.02, Pleinlaan 2 1050 Brussels, Belgium VUB - Structural Biology Brussels / Artificial Intelligence lab General Chemistry / Biomedical sciences ULB-VUB - Interuniversity Institute of Bioinformatics in Brussels (IB)2 Director, http://ibsquare.be/ ---------------------------------------------------------------------------------------

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