- BBClist - maillist.psb.ugent.be

Scientist permanent position open in bioinformatics for the comparison of microbial genomes at INRAE - MaIAGE research unit (Paris-Saclay University)
by BeNeLux bioinformaticians forum 15 Feb '23

15 Feb '23

Dear colleagues The StatInfOmics <https://maiage.mathnum.inrae.fr/en/statinfomics> team of the MaIAGE <https://maiage.mathnum.inrae.fr/en> unit, INRAE France is recruiting a researcher in bioinformatics and microbial comparative genomics. Don’t hesitate to disseminate this information broadly to anyone who might be interested in this permanent position. Especially if you have any national or European bioinformatics mailing list, please feel free to forward. You will find more details following this message. Thanks in advance for your help Kind regards Hélène Chiapello & Pierre Nicolas Information on the profile and the missions The profile and recruitment modalities are described on the INRAE website here <https://jobs.inrae.fr/en/open-competitions/open-competitions-research-scien…>. The missions of the recruited scientist will be to (i) design innovative approaches for the construction, analysis, and representation of bacterial pan-genomes (ii) valorize these methodological developments by analyses of (meta)genomic datasets focused on bacterial taxa of interest. The approaches developed will allow the setting up of strategic interdisciplinary projects for the Microbiology and Food Chain Department and INRAE and the dissemination to other units of the department in order to address finalized questions. This could involve identifying and understanding the evolution of genomic determinants of the pathogenicity of opportunistic bacteria, the fermentative or aromatic potential of bacteria of food interest, or antibiotic resistance in an ecosystem or a bacterial taxon. Training and skills required A PhD in bioinformatics, computational biology or genomics/comparative genomics is desired. The skills required are those of a bioinformatics researcher with expertise in genomics and/or comparative genomics: NGS data processing, algorithms (especially related to graphs), phylogenomic methods, population genomics concepts, correlation studies (GWAS, co-evolution). Mastery of at least one programming language (e.g. Python or R) and basic statistical approaches is expected. Fluency in English is desirable as well as a long term international experience: laureates who have not yet had such experience will be strongly encouraged to carry out a stay abroad co-constructed with the host team within 3 years after the internship year. For more information on the position, please contact Hélène Chiapello (helene.chiapello(a)inrae.fr <mailto:helene.chiapello@inrae.fr>). Applications must be submitted by March 2, 2023. Olivier Sand ELIXIR-FR Training Coordinator CNRS UAR3601 IFB-core/ UAR2014-US41 PLBS

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FW: PhD vacancy @MERLN
by BeNeLux bioinformaticians forum 15 Feb '23

15 Feb '23

Dear all, I have a PhD vacancy open on computational modelling of fibrotic scarring. If you have anyone in mind or want to spread the link through your networks, that would be great. https://www.academictransfer.com/en/323433/phd-position-merln-computational… Thank you very much, Bw Aurélie [cid:image003.jpg@01D7710F.FD9CF890] MERLN Institute for Technology-Inspired Regenerative Medicine dr. Aurélie Carlier Associate Professor Department of Cell Biology-Inspired Tissue Engineering a.carlier(a)maastrichtuniversity.nl <mailto:a.carlier@maastrichtuniversity.nl> M +31 (0)6 39 60 21 38 Universiteitssingel 40, 6229 ER Maastricht / Room C3.577 PO Box 616, 6200 MD Maastricht https://merlninstitute.com<https://merlninstitute.com/> https://sites.google.com/view/aureliecarlier/homepage https://be.linkedin.com/in/aureliecarlier Due to my personal choices to balance work and family life, you may receive emails outside of normal working hours. Feel free to respond at a time that suits you the best.

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BioSB 2023: Reminder call for abstracts & registration open!
by BeNeLux bioinformaticians forum 14 Feb '23

14 Feb '23

Dear colleague, Please find below our announcement for the BioSB 2023 conference<http://www.aanmelder.nl/biosb2023> on May 9-10, 2023 at Hotel Zuiderduin in Egmond aan Zee. You can still submit an abstract<https://www.aanmelder.nl/biosb2023/abstract-submission> for an oral presentation! Submission deadline: 3 March 23h59. We opened the registration<https://www.aanmelder.nl/biosb2023/registration> for the conference. Registration deadline: 14 April 2023! Best regards, Femke Francissen Event manager [signature_4246498233]<https://www.dtls.nl/biosb/> Submit your abstract before 3 March 23h5 View this email in your browser<https://mailchi.mp/dtls/save-the-date-biosb-5383812?e=39c5453766> [https://mcusercontent.com/3cef2d6f6da8f8059e2288298/images/189c93a8-3ebf-48…]<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> BioSB 2023 conference Reminder Call for abstracts & registration now open! Shortcuts * Abstract submission page<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> * Registration page<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> BioSB 2023 The 9th edition of the Dutch Bioinformatics & Systems Biology conference<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> (BioSB 2023) will be organized 9-10 May 2023 at Hotel Zuiderduin, Egmond aan Zee, the Netherlands. The conference will have a highly diverse programme featuring keynote lectures, parallel thematic sessions (featuring selected and invited talks), poster & demo sessions, network breaks a conference dinner & evening programme. We are happy to announce our first two keynote speakers! [https://mcusercontent.com/3cef2d6f6da8f8059e2288298/images/412d5d1e-706e-d2…] Dagmar Iber Department of Biosystems Science and Engineering, ETH Zürich, Switzerland read more<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> [https://mcusercontent.com/3cef2d6f6da8f8059e2288298/images/9418882a-9ffe-86…] Johannes Söding Quantitative and Computational Biology, MaxPlanck Institute for Biophysical Chemistry, Germany read more<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> On 8 May 2023 the YoungCB will organize the yearly PhD retreat. Information will follow iat the end of February 2023. You can now register for the BioSB2023 conference via the registration page<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> Reminder: Call for abstracts Abstract submission is open for oral, poster and software-demo (tools/software) presentations. The submission deadline for oral presentations is: 3 March 2023, 23h59! Submission topics You can submit an abstract for one of the following topics. Find a more detailed description of the topics on the submission topics webpage:<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> * Cancer research * Other health research * Plant and animal research * Microbes and microbial communities * Viruses and phages * Synthetic biology * Multi-scale modeling of patterning * Mechanistic modeling * Big data and omics * Structural biology/bioinformatics * Artificial intelligence * Phenotyping * Single-cell techniques * Evolutionary Systems Biology and Bioinformatics * ELIXIR * Miscellaneous Submission deadlines * Oral presentations: 3 March 2023, 23h59 * Notification oral presentations: 24 March 2023 * Demo presentations: 14 April 2023 * Poster presentations: 14 April 2023 Submit your abstract<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> Sponsor opportunities Would you like to be visible at our conference? We invite you to present your company to our diverse scientific public. We offer a number of attractive sponsorship packages, as well as exhibit space, but also custom made packages can be discussed. Find our sponsor & exhibitor packages here<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> Our sponsors [https://mcusercontent.com/3cef2d6f6da8f8059e2288298/images/9a7b0d12-b5e5-0e…] About The 9th edition of the Dutch Bioinformatics & Systems Biology conference<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> (BioSB 2023) will be organised on May 9-10 2023 at Hotel Zuiderduin, Egmond aan Zee, the Netherlands. The Dutch Bioinformatics & Systems Biology conference 2023 (BioSB 2023) discusses the latest developments in bioinformatics, systems and computational biology and interrelated disciplines, and their wide-ranging applications in life sciences & health, agriculture, food & nutrition. Subscribe to the Digital Life Sciences newsletter<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> to stay up to date about the conference. You can also follow us on Twitter: #BioSB2023 and LinkedIn<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> Visit the conference website<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> Organized by The conference will be organized by the BioSB research school<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> together with Wageningen University & Research<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…>, DTL<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> and ELIXIR-NL<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…>. [https://mcusercontent.com/3cef2d6f6da8f8059e2288298/images/7dd12221-4e24-53…]<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> [https://mcusercontent.com/3cef2d6f6da8f8059e2288298/images/c0c7e058-79b1-56…]<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> [Twitter]<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> [Website]<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> Copyright © 2023 Citing us where appropriate. update your preferences<https://dtls.us3.list-manage.com/profile?u=3cef2d6f6da8f8059e2288298&id=d62…> - unsubscribe from this list<https://dtls.us3.list-manage.com/unsubscribe?u=3cef2d6f6da8f8059e2288298&id…> - DTL privacy statement<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…>

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BioSB 2023: Reminder call for abstracts & registration open!
by BeNeLux bioinformaticians forum 14 Feb '23

14 Feb '23

Dear colleague, Please find below our announcement for the BioSB 2023 conference<http://www.aanmelder.nl/biosb2023> on May 9-10, 2023 at Hotel Zuiderduin in Egmond aan Zee. You can still submit an abstract<https://www.aanmelder.nl/biosb2023/abstract-submission> for an oral presentation! Submission deadline: 3 March 23h59. We opened the registration<https://www.aanmelder.nl/biosb2023/registration> for the conference. Registration deadline: 14 April 2023! Best regards, Femke Francissen Event manager [signature_4246498233]<https://www.dtls.nl/biosb/> Submit your abstract before 3 March 23h5 View this email in your browser<https://mailchi.mp/dtls/save-the-date-biosb-5383812?e=39c5453766> [https://mcusercontent.com/3cef2d6f6da8f8059e2288298/images/189c93a8-3ebf-48…]<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> BioSB 2023 conference Reminder Call for abstracts & registration now open! Shortcuts * Abstract submission page<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> * Registration page<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> BioSB 2023 The 9th edition of the Dutch Bioinformatics & Systems Biology conference<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> (BioSB 2023) will be organized 9-10 May 2023 at Hotel Zuiderduin, Egmond aan Zee, the Netherlands. The conference will have a highly diverse programme featuring keynote lectures, parallel thematic sessions (featuring selected and invited talks), poster & demo sessions, network breaks a conference dinner & evening programme. We are happy to announce our first two keynote speakers! [https://mcusercontent.com/3cef2d6f6da8f8059e2288298/images/412d5d1e-706e-d2…] Dagmar Iber Department of Biosystems Science and Engineering, ETH Zürich, Switzerland read more<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> [https://mcusercontent.com/3cef2d6f6da8f8059e2288298/images/9418882a-9ffe-86…] Johannes Söding Quantitative and Computational Biology, MaxPlanck Institute for Biophysical Chemistry, Germany read more<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> On 8 May 2023 the YoungCB will organize the yearly PhD retreat. Information will follow iat the end of February 2023. You can now register for the BioSB2023 conference via the registration page<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> Reminder: Call for abstracts Abstract submission is open for oral, poster and software-demo (tools/software) presentations. The submission deadline for oral presentations is: 3 March 2023, 23h59! Submission topics You can submit an abstract for one of the following topics. Find a more detailed description of the topics on the submission topics webpage:<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> * Cancer research * Other health research * Plant and animal research * Microbes and microbial communities * Viruses and phages * Synthetic biology * Multi-scale modeling of patterning * Mechanistic modeling * Big data and omics * Structural biology/bioinformatics * Artificial intelligence * Phenotyping * Single-cell techniques * Evolutionary Systems Biology and Bioinformatics * ELIXIR * Miscellaneous Submission deadlines * Oral presentations: 3 March 2023, 23h59 * Notification oral presentations: 24 March 2023 * Demo presentations: 14 April 2023 * Poster presentations: 14 April 2023 Submit your abstract<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> Sponsor opportunities Would you like to be visible at our conference? We invite you to present your company to our diverse scientific public. We offer a number of attractive sponsorship packages, as well as exhibit space, but also custom made packages can be discussed. Find our sponsor & exhibitor packages here<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> Our sponsors [https://mcusercontent.com/3cef2d6f6da8f8059e2288298/images/9a7b0d12-b5e5-0e…] About The 9th edition of the Dutch Bioinformatics & Systems Biology conference<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> (BioSB 2023) will be organised on May 9-10 2023 at Hotel Zuiderduin, Egmond aan Zee, the Netherlands. The Dutch Bioinformatics & Systems Biology conference 2023 (BioSB 2023) discusses the latest developments in bioinformatics, systems and computational biology and interrelated disciplines, and their wide-ranging applications in life sciences & health, agriculture, food & nutrition. Subscribe to the Digital Life Sciences newsletter<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> to stay up to date about the conference. You can also follow us on Twitter: #BioSB2023 and LinkedIn<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> Visit the conference website<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> Organized by The conference will be organized by the BioSB research school<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> together with Wageningen University & Research<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…>, DTL<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> and ELIXIR-NL<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…>. [https://mcusercontent.com/3cef2d6f6da8f8059e2288298/images/7dd12221-4e24-53…]<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> [https://mcusercontent.com/3cef2d6f6da8f8059e2288298/images/c0c7e058-79b1-56…]<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> [Twitter]<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> [Website]<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…> Copyright © 2023 Citing us where appropriate. update your preferences<https://dtls.us3.list-manage.com/profile?u=3cef2d6f6da8f8059e2288298&id=d62…> - unsubscribe from this list<https://dtls.us3.list-manage.com/unsubscribe?u=3cef2d6f6da8f8059e2288298&id…> - DTL privacy statement<https://dtls.us3.list-manage.com/track/click?u=3cef2d6f6da8f8059e2288298&id…>

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Bioinformatic postdoc Norwich
by BeNeLux bioinformaticians forum 14 Feb '23

14 Feb '23

Dear Benelux bioinformaticians, I would like to advertise here a postdoctoral researcher position in Norwich England for your consideration. The post description is attached, briefly in this position we will investigate the evolution of human, soil and aquatic microbial communities. Infrastructure for this project is excellent (novel datasets, plenty of HPC and newest seq tech, large assortment of bioinformatic & microbiology focused groups at Institutes) and the post is for 3+2 years to build a research career with care & foresight. Postdoctoral Research Scientist in Metagenomics | Earlham Institute<https://www.earlham.ac.uk/vacancy/postdoctoral-research-scientist-metagenom…> Kind regards, Falk Dr Falk Hildebrand PI at Quadram Institute Bioscience & Earlham Institute Norwich Research Park www.falk.science<https://eur01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.falk.s…>

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CFP META'2023 @Marrakech
by BeNeLux bioinformaticians forum 11 Feb '23

11 Feb '23

Dear colleagues, Apologies for cross-posting. Appreciate if you can distribute this CFP to your network. Thanks for your collaboration. ********************************************************************** META'2023 International Conference on Metaheuristics and Nature Inspired Computing 01-04 Nov 2023 Marrakech, Morocco http://meta2023.sciencesconf.org/ ********************************************************************** META is one of the main event focusing on the progress of the area of metaheuristics and their applications. As in previous editions, META’2023 will provide an opportunity to the international research community in metaheuristics to discuss recent research results, to develop new ideas and collaborations, and to meet old friends and make new ones in a friendly and relaxed atmosphere. All selected long papers will be published in the Springer (SCOPUS, ISI, DBLP) conference proceedings. META'2023 welcomes presentations that cover any aspects of metaheuristic research such as new algorithmic developments, high-impact applications, new research challenges, theoretical developments, implementation issues, and in-depth experimental studies. META'2023 strives for a high-quality program that will be completed by a number of invited talks, tutorials, workshops and special sessions. The scope of the META conference includes, but is not limited to: * Local search, tabu search, simulated annealing, VNS, ILS, … * Evolutionary algorithms, swarm intelligence, bio-inspired algorithms, … * Emergent nature inspired algorithms: artificial immune systems, bee colony, DNA computing, … * Quantum computing, neuromorphic computing * Parallel and distributed algorithms * Decomposition methods * Hybrid methods with machine learning, game theory, mathematical programming, constraint programming, co-evolutionary, … * Application to real-lide problems: logistics and transportation, networks, scheduling, data mining, engineering design, energy, cloud, bio-medical, … * Theory of metaheuristics, landscape analysis, convergence, problem difficulty, very large neighbourhoods, … * Multi-objective optimization, bi-level optimization * Dynamic optimization, problems with uncertainty, stochastic optimization, robust optimization, … * Parameter tuning (static, dynamic, adaptive, self-adaptive) * Hyper-heuristics, cross-domain metaheuristics * Software frameworks for metaheuristics and nature inspired computing Submission of papers: ____________________ - Submission of papers via the website S1) Short papers: Extended abstracts of work-in-progress and position papers of a maximum of 3 pages. S2) Long papers: Original research contributions of a maximum of 12 pages. S3) Journal papers: High-quality manuscripts that have recently, within the last year, been submitted or accepted for journal publication. For this special case, the submission should have the same title that the accepted work, the abstract AND the complete reference of the work. - Proceedings of the conference will be provided. Selected papers of type S2 will be published in a Springer book (SCOPUS, ISI, DBLP). - Predefined styles are available on the website http://meta2023.sciencesconf.org/ - Proposals for invited sessions, workshops and tutorials: contact meta2023(a)sciencesconf.org Important dates _______________ - Submission deadline: April 28, 2023 - Notification of acceptance: May 26, 2023 -- *********************************************************************** META'2023 International Conference on Metaheuristics and Nature Inspired Computing (SCOPUS, Springer) Marrakech, Morocco, Nov 1-4, 2023 https://meta2023.sciencesconf.org/ *********************************************************************** Prof. El-ghazali TALBI Polytech'Lille, University Lille - INRIA CRISTAL - CNRS

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Wanted: Postdoc Position on the Bioinformatics of Spatial Transcriptomics in Alzheimer’s Disease
by BeNeLux bioinformaticians forum 10 Feb '23

10 Feb '23

Dear BB - We are looking for a motivated postdoc to work on Spatial Transcriptomics in Alzheimer's Disease. We are trying to understand what happens around amyloid beta plaques in human AD samples, and better, how can we alter this. Attached is the ad. Best regards Mark Fiers

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Fwd: Bioinformatics engineer for web application deployment
by BeNeLux bioinformaticians forum 07 Feb '23

07 Feb '23

In case you’re interested in development of genome hubs in Montpellier cheers Frederik > Begin forwarded message: > > > If you know anyone in your network who might be interested by this job offer please forward it to them in order that it can apply before the 26th of february! > > https://recrutement.cirad.fr/job/emploi-ingenieur-e-en-bioinformatique-pour… > > Frederik Coppens - Project leader & IT manager Head of Node ELIXIR Belgium Applied Bioinformatics And Biostatistics I.T. Support VIB-UGent Center for Plant Systems Biology Ghent University Technologiepark 71 - 9052 Ghent - Belgium Tel. +32(0)9 331 38 12 www.psb.ugent.be <http://www.psb.ugent.be/>

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GTN Smörgåsbord 3 - Free, online, self-paced, and choose-your-own-adventure training event - May 22-26, 2023
by BeNeLux bioinformaticians forum 07 Feb '23

07 Feb '23

Dear all, The Galaxy Training Network is happy to announce the 3rd annual edition of the GTN Smörgåsbord global training event! This 5-day, 24/7 training event is completely free, and covers a wide range of topics, including foundations of data science, genomics, proteomics, machine learning, single-cell analysis, metagenomics, cancer analysis, SARS-CoV-2 analysis, ecology, climate science, RO-crates, and much much more! During the week, YOU decide your own schedule, pick and choose the topics that are interesting to you, and learn at your own pace, with support from the global community of over 100 Galaxy instructors available on Slack 24/7 to answer your questions! 📅 When: May 22-26, 2023 📍 Where: Online 📢 Format: Asynchronous, choose-your-own-adventure, video tutorials with online support 💸 Price: Free ➡️ Program & Registration: https://gxy.io/smorgasbord3 <https://gxy.io/smorgasbord3> Registration is now open! The program is still being updated, so check back regularly for the lastest additions to the program! The Galaxy Training Network P.S. Feel free to join our Slack (invite: https://gxy.io/smorgasbord-slack <https://gxy.io/smorgasbord-slack>) already, we will post the latest updates here, and of course we are happy to answer any questions you may have about the course!

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open positions at AI for Health at Helmholtz, Munich
by BeNeLux bioinformaticians forum 31 Jan '23

31 Jan '23

The AI for Health Institute at Helmholtz, Munich, https://www.helmholtz-munich.de/en/aih is looking for a postdoc with a background in machine learning for a challenging bioimage computing project. The interested candidates can contact the head of the Institute Carsten Marr. https://www.helmholtz-munich.de/en/aih/pi/carsten-marr (Until recently there were also openings for Principal Investigators with a strong machine learning background, so prospective candidates might be interested to contact Carsten about these offers too.)

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