September 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

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Vacature docent bioinformatica/data science for life sciences (Dutch)
by Martijn van der Bruggen 30 Sep '22

30 Sep '22

We hebben binnen een prachtig team ruimte voor bevlogen talent met hart voor onderwijs en onderzoek in de bioinformatica! Docent Bio-informatica Docent Bio-informatica / Data Science for Life Sciences (han.nl<https://www.han.nl/over-de-han/werken-bij-de-han/vacatures/docent-bio-infor…> (docent 1) en Docent Bio-informatica (han.nl<https://www.han.nl/over-de-han/werken-bij-de-han/vacatures/docent-bio-infor…> (docent 2) Martijn. Martijn van der Bruggen | Academiemanager ATBC | HAN_ University of Applied Sciences | Hogeschool van Arnhem en Nijmegen | Academie Toegepaste Biowetenschappen en Chemie | Postbus 6960, 6503 GL Nijmegen | Laan van Scheut 2 | LvS2 | M +31 6 55 20 63 44 | E Martijn.vanderBruggen(a)han.nl<mailto:Martijn.vanderBruggen@han.nl> | www.han.nl<http://www.han.nl/> | werkdagen maandag, dinsdag, woensdag, donderdag, vrijdag|

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Two internship offers in Paris
by Wim VRANKEN 27 Sep '22

27 Sep '22

Dear all, Please find below a message on behalf of Samuela Pasquali on two interdisciplinary internships that they offer in Paris on a project on interactive drug discovery. The internships can be of interest to students in biophysics, bioinformatics, chemistry, engineering or computer science programs. Best, Wim --------------------------------------------------------------------------------------- Prof. Dr. Wim Vranken Tel: +32 (0)2 6291952 (VUB) VUB - Building E, 5th Floor, E5.02, Pleinlaan 2 1050 Brussels, Belgium Structural Biology Brussels/Artificial Intelligence/General Chemistry/Biomedical sciences Associate professor - http://bio2byte.be/ ULB-VUB - Interuniversity Institute of Bioinformatics in Brussels (IB)2 Member and former director - http://ibsquare.be/ ELIXIR - Bringing together life science resources across Europe Co-lead of ELIXIR IDP community, member of ELIXIR-Belgium management board ---------------------------------------------------------------------------------------

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Hanze University of Applied Sciences is looking for a Data Steward
by Kempenaar M, Marcel 27 Sep '22

27 Sep '22

Dear all, I’d like to point you to a vacancy we are currently having for a Data Steward. Please see the full text here: * Direct link: https://www.tangram-tis.nl/10153/Vacatures/20022%2D02S0002AEP/Data%20Steward * From the Hanze website: https://www.hanze.nl/nld/organisatie/carriere/werken-bij-hanzehogeschool/so… ---- At the Institute for Life Science and Technology at the Hanze University of Applied Sciences there is a vacancy for a Data Steward (0.8 FTE). Do you have data skills and affinity with data and are you looking to play a key role in biomedical research within a large interdisciplinary consortium? Function description As Data Steward at the Institute for Life Science and Technology you will: · Develop and disseminate policy in Research Data Management (RDM) according to FAIR principles. · Communicate with consortium partners in different fields of research and provide support for developing Data Management Plans and Standard Operating Procedures. · Organise and manage data of the partners, and make them accessible according to FAIR principles, enabling integrated analysis. · Develop training material for and give workshops on RDM, FAIR principles, and tools/applications in relation to research, both for consortium partners and for the education within the Hanze UAS. · (Further) development and implementation of services and products for generation, management and reuse of research data. · Contribute to further development of strategies and policies related to data management within Hanze UAS. Where will you work? You will work for the Institute for Life Science and Technology as part of the team Bioinformatics (responsible for the Bachelor Bioinformatics and the Master Data Science for Life Sciences). The team is small and has a personal atmosphere. The courses are well appreciated by students and the professional field. You will work closely together with the Lector Data Science for Life Sciences and Health and the senior lecturer research. Part of the work will be exercised within the Knowledge Center Biobased Economy (KCBBE), which is aimed at applied science contributing to a healthy and sustainable society. In addition, you will be active in a dynamic interdisciplinary consortium of universities, medical centres, and other organisations together conducting research on so-called poly-Q genetic disorders, which include Huntington's disease, aimed at improved diagnosis and treatment. ---- Best regards, -- Marcel Kempenaar | Researcher / lecturer | Bioinformatics | Hanze University of Applied Sciences | ✉Zernikeplein 11, 9747 AS Groningen | ⌂ room D1.12 | ✆+31 50 595 3888

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Vacancy in bioinformatics
by Brunsveld, Luc 25 Sep '22

25 Sep '22

Dear bbclist-team, I would like to kindly request the following vacancy to be posted on your platform. It should be of interest to many from your community. https://careers.jobscore.com/careers/ambagon/jobs/senior-scientist-bioinfor… Kind regards and much obliged, Luc Brunsveld [TUE nieuw logo] Luc Brunsveld Laboratory of Chemical Biology P.O. Box 513 (Helix STO 3.37) • 5600 MB Eindhoven • The Netherlands Tel: +31 40 247 2870/5378 https://www.tue.nl/en/research/researchers/luc-brunsveld/

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Database manager for the BCCM culture collections consortium
by Annick Wilmotte 23 Sep '22

23 Sep '22

Dear colleagues, The Belgian Coordinated Collections of Microorganisms are looking for a informatician-database manager. Thanks very much for sharing the information with interested persons, Best regards, Annick Wilmotte

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One step forward! Bioinformatics training coming up in October and November.
by Bruna Piereck Moura 23 Sep '22

23 Sep '22

[cid:image001.png@01D8C126.F37CF3C0] [signature_2008044598] Stay tuned! Join us to the next level! Dear colleague, Coming up in October and November, the Docker & Singularity<https://training.vib.be/all-trainings/docker-and-singularity-reproducible-a…> and NextFlow<https://training.vib.be/all-trainings/nextflow-reproducible-and-automated-d…> trainings are open for registration, respectively. The Docker (and Singularity) for reproducible and automated data analysis training is happening on the 24th and 26th of October in Ghent. This will be important for you to follow the Nextflow for reproducible and automated data analysis training that is happening on the 17th and 18th of October in Ghent. Both Face-to-face sessions. And more! Coming up in October, the FlowSOM<https://training.vib.be/all-trainings/flowsom-handling-cytometry-data-0> training will help you with Cytometrix experiments automation, while the ChIP-seq and ATAC-seq<https://training.vib.be/all-trainings/hands-introduction-chip-seq-and-atac-…> training will go from processing to analysis so you can answer biological questions. Read more bellow and don't forget to subscribe! Docker (and Singularity) for reproducible and automated data analysis ____________________________________________________________________________________ 24th to 26th October 2022 - Ghent Face to Face training The course will introduce 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. Subscription and info: https://training.vib.be/all-trainings/docker-and-singularity-reproducible-a… Nextflow for reproducible and automated data analysis __________________________________________________________________________________ 17th to 18th November 2022 - Ghent 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. Subscription and info: https://training.vib.be/all-trainings/nextflow-reproducible-and-automated-d… FlowSOM for handling cytometry data ____________________________________________________________________________________ 10th October 2022 - Ghent Face to Face training The number of markers, cells and samples measured in cytometry experiments keeps increasing. While this offers unique opportunities, it also complicates the traditional manual gating process, which becomes time-consuming and subjective. Replacing the manual gating by an automated pipeline can solve these issues. In this workshop, we will explore how to handle cytometry data in R, with a focus on the FlowSOM clustering algorithm. Subscription and info: https://training.vib.be/all-trainings/flowsom-handling-cytometry-data-0 Hands on introduction to ChIP-seq and ATAC-seq analysis ____________________________________________________________________________________ 28th October 2022 - Leuven Face to Face training This training gives an introduction to ChIP-seq and ATAC-seq data analysis, covering the processing steps starting from the reads to the peaks. Among all possible downstream analyses, the practical aspect will focus on motif analyses. A particular emphasis will be put on deciding which downstream analyses to perform depending on the biological question. Subscription and info: https://training.vib.be/all-trainings/hands-introduction-chip-seq-and-atac-… Kind regards Trainer coordinators, ELIXIR Belgium Training Coordinator Technologiepark-Zwijnaarde 75 9052 Zwijnaarde, Belgium [signature_2008044598] [cid:image001.png@01D8C126.F37CF3C0]

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Postdoc position in AI and decision-making @ Esade
by Pepe bonet giner 21 Sep '22

21 Sep '22

Dear all, Esade Business School is looking for a postdoctoral researcher in AI and decision-making. Maybe a good first step towards working in a company. https://www.linkedin.com/jobs/view/postdoctoral-researcher-%E2%80%93-ai-dec… Best, Pepe -- *Pepe Bonet Giner* Co-founder & CEO Hynts Analytics <https://hyntsanalytics.com/> p.bonet(a)hyntsanalytics.com <pepebogi5(a)gmail.com> | Linkedin <https://www.linkedin.com/in/jose-bonet-giner-2a3993147/>

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CFP OLA'2023 Optimization & Learning @Malaga (Spain)
by El-ghazali Talbi 16 Sep '22

16 Sep '22

Apologies for cross-posting. Appreciate if you can distribute this CFP to your network. **************************************************************************************** OLA'2023 International Conference on Optimization and Learning 3-5 May 2023 Malaga, Spain http://ola2023.sciencesconf.org/ SCOPUS Springer Proceedings **************************************************************************************** OLA is a conference focusing on the future challenges of optimization and/or machine learning methods and their applications. The conference OLA'2023 will provide an opportunity to the international research community in optimization and learning to discuss recent research results and to develop new ideas and collaborations in a friendly and relaxed atmosphere. OLA'2023 welcomes presentations that cover any aspects of optimization and/or machine learning research such as big optimization and learning, optimization for learning, learning for optimization, optimization and learning under uncertainty, deep learning, new high-impact applications, parameter tuning, 4th industrial revolution, computer vision, hybridization issues, optimization-simulation, meta-modeling, high-performance computing, parallel and distributed optimization and learning, surrogate modeling, multi-objective optimization ... Submission papers: We will accept two different types of submissions: - S1: Extended abstracts of work-in-progress and position papers of a maximum of 3 pages - S2: Original research contributions of a maximum of 10 pages Important dates: =============== Paper submission extended deadline Dec 16, 2022 Notification of acceptance Jan 27, 2022 Proceedings: Accepted papers in categories S1 and S2 will be published in the proceedings. A SCOPUS and DBLP indexed Springer book will be published for accepted long papers. Proceedings will be available at the conference. -- ********************************************************************** OLA'2023 International Conference on Optimization and Learning (SCOPUS, Springer) Malaga, Spain, May 3-5, 2023 http://ola2023.sciencesconf.org *********************************************************************** META'2023 International Conference on Metaheuristics and Nature Inspired Computing (SCOPUS, Springer) Marrakech, Morocco, Oct 25-28, 2023 *********************************************************************** Prof. El-ghazali TALBI Polytech'Lille, University Lille - INRIA CRISTAL - CNRS -- ********************************************************************** OLA'2023 International Conference on Optimization and Learning (SCOPUS, Springer) Malaga, Spain, May 3-5, 2023 http://ola2023.sciencesconf.org *********************************************************************** META'2023 International Conference on Metaheuristics and Nature Inspired Computing (SCOPUS, Springer) Marrakech, Morocco, Oct 25-28, 2023 *********************************************************************** Prof. El-ghazali TALBI Polytech'Lille, University Lille - INRIA CRISTAL - CNRS

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Vacancy for post-doc in bioinformatics or systems biology
by Kemmeren-2, P.P.C.W. (Patrick) 16 Sep '22

16 Sep '22

Dear all, On behalf of my fellow research group leader, I wanted to share that we have an opening for a post-doc in bioinformatics or systems biology at the Princess Maxima Center for Pediatric Oncology. The project is aimed at understanding the contribution of (epigenetic) mechanisms to clonal dynamics during tumor progression and therapy resistance. Interested in joining, please apply at https://werkenbijprinsesmaximacentrum.nl/vacature/2781/ Regards, Patrick -- Patrick Kemmeren, PhD Principal Investigator & head Big Data Core Princess Máxima Center Associate Professor UMC Utrecht T +31 (0)88 972 90 00 | M +31 (0)6 53 11 25 53 [signature_3953939402] [signature_2705691252] Princess Máxima Center for Pediatric Oncology Heidelberglaan 25 | 3584 CS Utrecht | T +31 (0)88 972 90 00 | > Website<https://research.prinsesmaximacentrum.nl/en/research-groups/kemmeren-group>

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