December 2022 - BBClist - maillist.psb.ugent.be

PhD position in Integrating of multiple -omics datasets
by Claesen Jürgen 04 Jun '24

04 Jun '24

Dear all, SCK CEN and UHasselt are looking for candidates for a PhD project with the title: "Integromics - Towards integration of big biomolecular data to enable systems biology" Description The last decades, development of high-throughput technologies such as next-generation sequencing, microarrays and mass spectrometry has led to a paradigm shift in biology and life sciences. Where previously one biomolecule (for example, a gene, or a protein) was studied as a single entity, these experimental techniques allow to study a set of biomolecules (for example, the genome or the proteome) in one go and in a limited amount of time. While, at first, experiments were analyzed independently from each other, combining information of several experimental techniques, and correlating them with environmental and/or clinical parameters, is, nowadays, of great interest. As a consequence, novel statistical and computational methodologies for the analysis of multi-omics datasets have to be developed, allowing a multi-dimensional view on complex biological processes. In this PhD project, we aim at the development of computational methods for the analysis of multi-omics datasets, that are commonly generated by the three biology units of SCK*CEN, which will improve the understanding and valorization of the data, and which will keep the biology units up to date with current developments in biology and bioinformatics. Profile and diploma As a doctorate researcher you will join the dynamic bioinformatics team at SCK CEN and CenStat (UHasselt). A successful candidate should have : * A master degree in biostatistics/applied statistics/bioinformatics/statistical bioinformatics. * You are acquainted with statistical methodologies and had exposure to computer programming in SAS/R/Winbugs/Python. * You can work independently and within a team. * You have excellent communication skills. * You are interested to develop new methodology from both theoretical and applied aspects. * You enjoy working in a multidisciplinary and multicultural environment. * You are willing to closely collaborate with biologists/biostatisticians. * You speak and write English fluently. * You have work experience with at least two different "omics" platforms. For more information contact: Dr. Claesen Jürgen (SCK-CEN), jclaesen(a)sckcen.be<https://academy.sckcen.be/en/Mailform?contactid=b22040b5-cf18-496f-a82a-3bc…> Prof. Shkedy Ziv (Hasselt University), ziv.shkedy(a)uhasselt.be<https://academy.sckcen.be/en/Mailform?contactid=51ae7733-8006-4347-b211-9a4…> Link to the project in SCK-CEN: https://academy.sckcen.be/en/Your_thesis_internship/AllTopics/Integromics--… Kind Regards, Jürgen

2 1

Opening for an Assistant Professor Artificial Intelligence in Plant & Microbial Biology
by Abeln, S. (Sanne) 24 Jan '23

24 Jan '23

Dear colleagues, Utrecht University has an opening for an Assistant Professor position in Artificial Intelligence in Plant & Microbial Biology. We seek a new colleague who will perform research in machine learning and artificial intelligence to resolve big data-driven fundamental research questions in the green life sciences. The Assistant Professor will be part of the new interdepartmental AI Technology for Life group and the Plant-Microbe Interactions group. For more details, see: https://www.uu.nl/en/organisation/working-at-utrecht-university/jobs/assist… Applications need to be received by 23 January 2023. It would be nice if you could share this position with potential candidates, Many thanks, Sanne --- Sanne Abeln Associate Professor in Bioinformatics Dep. of Computer Science - Vrije Universiteit +31 20 59 87816<tel:+31%2020%2059%2087816> https://www.few.vu.nl/~abeln/

2 1

Introduction to Python
by BeNeLux bioinformaticians forum 28 Dec '22

28 Dec '22

[cid:image001.png@01D91AA9.9C405FC0] [signature_2008044598] Gentle hands-on introduction to Python programming Dear colleagues, Coming up in April 12th ,19th and 26th we are offering the first hybrid session of Gentle hands-on introduction to Python programming! You can join us in person or online, whatever you feel most convenient. But we advise you to be fast and join us to the limit number of in person participation! To Happen in Ghent, at the Technologiepark-Zwijnaarde, this course gently introduces programming to new programmers. There are plenty of opportunuties to apply and practice what you learn, and ask questions in a safe place. Furthermore, surprise yourself by building a substantial project over the 3 course weeks. We're going to use the popular Python programming language to prepare you for real-world research application of what you learn. Subscription and info in this link<https://training.vib.be/all-trainings/gentle-hands-introduction-python-prog…> ! Kind regards, Bruna Piereck ELIXIR Belgium Training Coordinator VIB Bioinformatics Core Technologiepark-Zwijnaarde 75 9052 Zwijnaarde, Belgium tel +32 0497 2988 73 [cid:image001.png@01D91AA9.9C405FC0][signature_2008044598]

1 0

Two open vacancies bioinformatics @Sciensano
by BeNeLux bioinformaticians forum 28 Dec '22

28 Dec '22

Dear all, The Bioinformatics Platform at the Belgian Institute of Health (www.sciensano.be<http://www.sciensano.be>) currently has two vacancies for a bioinformatician or a computer scientist: - To work on setting up services and infrastructure within the context of the Genomics Data Infrastructure project (https://jobs.sciensano.be/content/jobpage.asp?a=DETAIL&jdkid=1029&l=DUTCH) - To work on setting up solutions and applications to enhance future pathogen outbreak responses (https://jobs.sciensano.be/content/jobpage.asp?a=DETAIL&jdkid=1056&l=DUTCH) Applications are possible using the links above. Sincerely, K Kevin Vanneste, PhD Senior scientist - Responsible Bioinformatics Platform Transversal activities in Applied Genomics (TAG) T + 32 2 642 50 65 [cid:image001.jpg@01D4595B.6D6E05D0] Rue Juliette Wytsmanstraat 14 * 1050 Brussels www.sciensano.be<http://www.sciensano.be/> P Please consider the environment before printing this e-mail

1 0

JUNIOR LECTURER VU/UvA MASTER’S PROGRAMME BIOINFORMATICS AND SYSTEMS BIOLOGY JD
by BeNeLux bioinformaticians forum 23 Dec '22

23 Dec '22

Dear Reader, There is a Junior Lecturer position available at the VU/UvA for teaching in Bioinformatics & Systems Biology Check out the VU website : https://workingat.vu.nl/ad/junior-lecturer-juniordocent-masters-programme-b… [https://workingat.vu.nl/api/file/get/54a4a5e6-ec7f-44b4-801c-997f0e34793f]<https://workingat.vu.nl/ad/junior-lecturer-juniordocent-masters-programme-b…> Junior lecturer (juniordocent) Master’s Programme Bioinformatics and Systems Biology JD - >Working at VU<https://workingat.vu.nl/ad/junior-lecturer-juniordocent-masters-programme-b…> We are looking for a colleague who is passionate about education and dedicated to support the VU/UvA joint degree Master’s programme for Bioinformatics and Systems Biology<https://vu.nl/en/education/master/bioinformatics-and-systems-biology> Please apply... workingat.vu.nl Kind Regards, Marten Dr. Marten Postma Assistant Professor Chair Examinations Board BSc BMW/MSc BMS Leerlijncoördinator Omics en Systeembiologie BSc BMW Track coordinator Systems Biology MSc BioSB JD Member Admission Committee MSc BioSB JD Vice-chair Curriculum Committee MSc BioSB JD Member SILS Educational Committee (SEC) zoom : https://uva-live.zoom.us/j/2612815610 Room C2.102 (SILS) Swammerdam Institute for Life Sciences (SILS) University of Amsterdam (uVA) Science Park 904 1098 XH Amsterdam The Netherlands tel : +31 20 525 6225 e-mail : M.Postma(a)uva.nl<mailto:M.Postma@uva.nl> website : http://www.martenpostma.nl/science/

1 0

Job Advertisement Bioinformatician (f/m/d)
by BeNeLux bioinformaticians forum 23 Dec '22

23 Dec '22

Dear Madams & Sirs, The Max Planck Institute for Multidisciplinary Sciences in Göttingen, Germany, is a leading international research institute of exceptional scientific breadth. With more than 40 research groups and some 1,000 employees from over 50 nations, it is the largest institute of the Max Planck Society. The department of Tissue Dynamics and Regeneration (Dr. Jochen Rink) invites applications for a position as Bioinformatician (f/m/d) You will find the complete job description as attachment to this email with a request to publish it in your department/division. Should you have any questions or need further information, please do not hesitate to contact me. We thank you in advance for your support and wish you a happy holiday season. Mit freundlichen Grüßen / Best Regards Martina Lingl Team Assistant Department of Tissue Dynamics and Regeneration Max-Planck-Institute for Multidisciplinary Sciences Am Faßberg 11, 37077 Göttingen, Germany Phone: ++49 551 201 26100 Fax: ++49 551 201 2705 office.rink(a)mpinat.mpg.de<mailto:office.rink@mpinat.mpg.de> martina.lingl(a)mpinat.mpg.de<mailto:martina.lingl@mpinat.mpg.de>

1 0

vacature Bioinformaticus (BSc, MSc), humane genetica
by BeNeLux bioinformaticians forum 22 Dec '22

22 Dec '22

Hi all, I have a vacancy for a bioinformatician within my team! https://werkenbijumcutrecht.nl/vacatures/it/bioinformaticus-wetenschappelij… Enjoy the holidays! Met vriendelijke groet, Hanneke van Deutekom [Universitair Medisch Centrum Utrecht] Hoofd Bioinformatica | Divisie Laboratoria, Apotheek en Biomedische Genetica, Genoomdiagnostiek Universitair Medisch Centrum Utrecht | Kamernummer STR.0.308 | Huispostnummer STR.1.305 T: +31 88 75 68116 M +31 6 311 179 26| www.umcutrecht.nl<http://www.umcutrecht.nl> | Werkdagen: ma,di,do,vr ________________________________ De informatie opgenomen in dit bericht kan vertrouwelijk zijn en is uitsluitend bestemd voor de geadresseerde. Indien u dit bericht onterecht ontvangt, wordt u verzocht de inhoud niet te gebruiken en de afzender direct te informeren door het bericht te retourneren. Het Universitair Medisch Centrum Utrecht is een publiekrechtelijke rechtspersoon in de zin van de W.H.W. (Wet Hoger Onderwijs en Wetenschappelijk Onderzoek) en staat geregistreerd bij de Kamer van Koophandel voor Midden-Nederland onder nr. 30244197. P Denk s.v.p. aan het milieu voor u deze e-mail afdrukt.

1 0

2023 is in around the corner! 🍾 Check what is coming up.
by BeNeLux bioinformaticians forum 21 Dec '22

21 Dec '22

[cid:image001.png@01D91546.6FFD3720] [signature_2008044598] 2023 is in around the corner! 🍾 Check what is coming up. Dear colleagues, Coming up in 2023 we are offering trainings that can help you with different stages of the Research Data Management (RDM) of your project, you can start keeping track of versions of your code and writing by following introduction to Git & GitHub. And you can make your analysis reproducible using Docker (and Singularity) for reproducible and automated data analysis. Without forgetting that you can have scalable and reproducible pipelines built with Nextflow for reproducible and automated data analysis. Find bellow the details you need to join us in any of the coming up trainings. Don’t forget to subscribe! Introduction to Git & GitHub ____________________________________________________________________________________ 8th February 2023 – Brussels Face to Face training This workshop will take you through the basic use of Git and GitHub. Git is a free and open source distributed version-control system designed to maintain code, track changes, recover old versions and collaborate with other developers Registration and info: Link for Git & GitHub<https://training.vib.be/all-trainings/introduction-git-github-5> Docker (and Singularity) for reproducible and automated data analysis ____________________________________________________________________________________ 13th and 14th March 2023 – Leuven Face to Face training The course will give an introduction to containers (Docker & Singularity) which are great components to achieve portability and reproducibility of your analysis. You will learn how to use containers and how to build a container from scratch, share it with others and how to re-use and modify existing containers. After an extensive explanation on Docker containers, Singularity will be highlighted as well. Registration and info: Docker and reproducibility<https://training.vib.be/all-trainings/nextflow-reproducible-and-automated-d…> Nextflow for reproducible and automated data analysis ____________________________________________________________________________________ 30th and 31st March 2023 – Leuven Face to Face training You will learn how to use Nextflow for building scalable and reproducible bioinformatics pipelines and running them on a personal computer, cluster and cloud. Starting from the basic concepts we will build our own simple pipeline and add new features with every step, all in the new DSL2 language. Registration and info: NextFlow automated pipeline<https://training.vib.be/all-trainings/nextflow-reproducible-and-automated-d…> Kind regards, Bruna Piereck ELIXIR Belgium Training Coordinator VIB Bioinformatics Core Technologiepark-Zwijnaarde 75 9052 Zwijnaarde, Belgium tel +32 0497 2988 73 [cid:image001.png@01D91546.6FFD3720][signature_2008044598]

1 0

Postdoc/Project Manager position available | VIB Single Cell Core 🎄
by BeNeLux bioinformaticians forum 20 Dec '22

20 Dec '22

Dear colleagues, The VIB Single Cell Core is expanding, we are looking for a new colleague to support the follow-up of ongoing projects and implement novel methods where possible. Check out the vacancy via this link<https://jobs.vib.be/j/53475/single-cell-expert-project-manager-at-vib-singl…>. Thank you for forwarding this job advertisement to potential candidates in your network! [cid:part1.yU552hZ6.KG0khdI8@kuleuven.be]Happy Holidays from the Single Cell Core! https://jobs.vib.be/j/53475/single-cell-expert-project-manager-at-vib-singl… -- Niels Vandamme | Head of VIB Single Cell Core VIB - Vlaams Instituut voor Biotechnologie KU Leuven | Campus Gasthuisberg O&N5 - Herestraat 49 box 602, 3000 Leuven Niels.Vandamme(a)kuleuven.be<mailto:Niels.Vandamme@kuleuven.be>

1 0

Post-doctoral position: plant single-cell bioinformatics
by Michiel Van Bel 20 Dec '22

20 Dec '22

Post-doctoral assistant → Apply until 24/01/2023 (DD/MM/YYYY) 23:59 (Brussels time) → Faculty of Sciences → Department WE09 - Plant Biotechnology and Bioinformatics → AAP temporary appointment - 100% → Number of openings: 1 → Reference number: 202210/WE09/DA/032 ABOUT GHENT UNIVERSITY Ghent University is a world of its own. Employing more than 8,000 people, it is actively involved in education and research, management and administration, and technical and social services on a daily basis. It is one of the largest, most exciting employers in the area and offers great career opportunities. With each of its 11 faculties and more than 100 departments offering state-of-the-art study programmes that are grounded in research in a wide range of academic fields, Ghent University is a logical choice for its employees as well as its students. YOUR TASKS * At least 70% of your assignment will be spent on academic research in the research group [ https://www.psb.ugent.be/index.php/groups/comparative_network_biology | Comparative Network Biology ] of the department [ https://www.psb.ugent.be/ | Plant Biotechnology and Bioinformatics ] ; this in the following domains : bioinformatics, computational biology, systems biology, machine learning and single-cell data analysis. * You will assist in teaching activities at Bachelor’s or Master’s level. More specifically, you will help with practical classes, seminars and master’s projects of courses related to bioinformatics and systems biology that are taught in the framework of the Bachelor and Master in Biochemistry and Biotechnology and the Master in Bioinformatics. * You will counsel Master’s students in their exercises, work placement and Master’s dissertation. * You will counsel doctoral students. * You will assist in the internal and external services of the department, amongst others as a point of contact for students following the BIS (bioinformatics and systems biology) option of the Master in Biochemistry and Biotechnology and for students of the Master in Bioinformatics. You will act as a representative for the field of bioinformatics and systems biology during information sessions. WHAT WE ARE LOOKING FOR You hold a doctoral degree (Doctor of Science: Bioinformatics, Doctor of Science: Biochemistry, Doctor of Science: Biochemistry and Biotechnology, Doctor of Bioscience Engineering, or a subject considered relevant by the selection committee). For diplomas awarded outside the European Union, a certificate of equivalence (NARIC) must be submitted. The degree requirements need to be fulfilled at the start of your appointment. * You have already conducted research within the field of computational biology, machine learning or systems biology in plants (experience with programming and Unix-like command-line usage is essential). * You have distinguished yourself as a promising researcher during your doctorate. * You are profoundly interested in coaching students in the Bachelor’s, Master’s and/or Advanced Master’s programmes. * You can present relevant scientific publications in (inter)national peer-reviewed academic journals that are widely disseminated. * You have good communication and didactic skills. * You are fluent in written and spoken English; knowledge of Dutch is a plus. WHAT WE OFFER YOU We offer you a temporary appointment of 3 years. A second appointment of up to 3 years can follow, subject to a favourable evaluation of the first term. * Even if you have already been appointed earlier (whether or not at another university and whether or not in the same field of discipline) in a first term of up to three years, you can apply. * The second appointment does not have to be immediately connected to a first term. * Your appointment will start on 1 April 2023 at the earliest. * Your remuneration will be determined according to salary scale AAP5. [ https://www.ugent.be/nl/vacatures/salarisschalen/aapvwpeas3.htm | More information about our salary scales ] . * All Ghent University staff members enjoy a number of benefits, such as a wide range of training and education opportunities, 36 days of paid leave, bicycle commuting reimbursement, ecocheques, etc. [ http://www.ugent.be/nl/vacatures/personeelsvoordelen.htm | A complete overview of all our fringe benefits ] (in Dutch). INTERESTED? Apply online through the e-recruitment system before the application deadline (see above). We do not accept late applications or applications that are not sent through the online system. Your application must include the following documents: In the field ‘Cv’: your cv and an overview of your relevant scientific (merged into one pdf file). * In the field ‘Cover letter’: your application letter in pdf format. * In the field ‘Diploma’: a transcript of the required degree (if already in your possession). If you have a foreign diploma in a language other than our national languages (Dutch, French or German) or English, please add a translation in one of the mentioned languages. * In the field ‘Certificate of equivalence’: only for diplomas awarded outside the European Union a certificate of equivalence (NARIC) must be submitted. (This can be requested via www.naricvlaanderen.be/en ). For diplomas awarded in the UK before January 31st of 2020, a certificate of equivalence is not required. Note that the maximum file size for each field is 10 MB. As Ghent University maintains an equal opportunities and diversity policy, everyone is encouraged to apply for this position. MORE INFORMATION For more information about this vacancy, please contact Prof. Klaas Vandepoele ( [ mailto:Klaas.Vandepoele@UGent.be | Klaas.Vandepoele(a)UGent.be ] , +32 (0)9/331 38 22) or Prof. Yves Van de Peer ( [ mailto:Yves.VandePeer@UGent.be | Yves.VandePeer(a)UGent.be ] , +32 (0)9/331 38 07) Do you have a question regarding the online application process? Please read our [ https://www.ugent.be/en/work/faq-applying-online.htm | FAQ ] . [ https://career5.successfactors.eu/career?company=C0000956575P&site=VjItRG9O… | Apply to this job now... ]

1 0