- BBClist - maillist.psb.ugent.be

Postdoc position Computational Biology: workflow development for single-cell data analysis in plants
by Klaas Vandepoele 09 Jun '21

09 Jun '21

Thanks to forward to potentially interested candidates! Apologies for double postings. -- We are looking for a junior postdoctoral researcher to work on computational workflow development for gene-trait discovery and prioritization in agricultural biotechnology using single-cell genomics. This project is fully funded by UGent (Belgium) for 20 months (extension is possible) and ideally starts September 2021. The successful applicant will be part of the VIB-UGent [ http://bioinformatics.psb.ugent.be/cnb/ | Comparative Network Biology ] (Vandepoele) lab, an international, diverse, and vibrant group of research fellows at different career levels. Job description - Development of workflows to Retrieve, process and curate plant trait information from dedicated databases and literature (via text-mining and natural language processing). Process and store ontologies and gene-trait information in a relational database - Development and benchmarking of a command-line Nextflow pipeline to perform gene-trait discovery using single-cell RNA-Seq, network biology and curated plant trait data - Evaluation of the developed gene-trait discovery pipeline using newly generated single-cell datasets for different crop plants - Optional: interactions with (inter)national industrial/academic partners working on single-cell genomics and valorization. Your profile - You have a PhD in Bioinformatics, Computational biology or similar. - Having good programming (Python) and Linux skills is a must; experience with Nextflow pipelines is an asset. - You like and have experience with software/workflow/tool development. - Knowledge in plant or single-cell biology is a plus but not essential. - You are enthusiastic about computational tool development and want to learn more about applying computational biology for single-cell data analysis. - You have good communication skills and are proficient in English. Application Procedure If you are interested, please submit your application via [ https://career5.successfactors.eu/sfcareer/jobreqcareer?jobId=19229&company… | https://career5.successfactors.eu/sfcareer/jobreqcareer?jobId=19229&company… ] (clearly mentioning your computational skills and expertise in your CV). Deadline for applying: July 9th 2021. For more info, contact klaas.vandepoele(a)psb.vib-ugent.be Klaas Vandepoele - Professor Comparative Network Biology VIB-UGent Center for Plant Systems Biology Ghent University Technologiepark-Zwijnaarde 71 - 9052 Ghent - Belgium Tel. +32(0)9 331 38 22 [ http://www.psb.ugent.be/ | www.psb.ugent.be ] Genome editing, cutting-edge technology for a sustainable agriculture

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Helis Academy - Data Analysis and Stewardship related virtual events: Symposium 17 June and Company Visits 18 June
by Celia van Gelder 04 Jun '21

04 Jun '21

Dear all, On June 17-18, 2021: The Helis Academy <https://helisacademy.com/en>, with Data Analysis and Data Stewardship <https://helisacademy.com/en/data-analysis-stewardship> as one of its pillars, is organizing 2 half-day virtual events related to “Optimizing industry readiness in the The Netherlands and Flanders <https://helisacademy.com/en/closing-event/symposium>”. Day 1 (17 June 2021) contains a keynote of the CEO of Academic Transfer and interactive sessions about the Helis pillars. On Day 2 (18 June 2021) there are virtual company visits, a.o. to BASF and Ontoforce. The Data Analysis and Data Stewardship pillar of Helis is brought to you by VIB/ELIXIR-Belgium, TU/e, Maastricht University and DTL/ELIXIR-NL. We are looking forward to seeing you there! Best Celia -- Dr. Celia W.G. van Gelder Programme Manager DTL Learning Training Coordinator ELIXIR-NL ELIXIR Training Platform Leader tel. +31613375327 e-mail: celia.van.gelder(a)dtls.nl websites: https://www.dtls.nl/, https://www.elixir-europe.org/platforms/training skype: celia.van.gelder Office: DTL | Jaarbeurs Innovation Mile (JIM) | 6th floor Beatrixgebouw | Jaarbeursplein 6 | 3521 AL Utrecht Postal address: Postbus 8500 | 3503 RM Utrecht While I may be sending this email outside my normal office hours, I have no expectation to receive a reply outside yours.

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Galaxy Community Conference 2021 - Programme available - Early registration ends 8 June
by Kim DE RUYCK 04 Jun '21

04 Jun '21

Dear, The early registration deadline for the 2021 Galaxy Community Conference has been moved back to June 8 . This gives you more time to take advantage of the 50% discount off full registration prices, so make sure you sign up now so you don't miss out! Register [ https://www.vibconferences.be/events/gcc2021-virtual-edition#attendees | here ] . The [ https://gcc2021.sched.com/ | draft programme ] and the speakers are now also available online. Please bear in mind that the times are set for the Europe/Middle East/Africa - Asia/Pacific window, and that the same schedule will run 9 hours later for the Americas. The availability of the speakers for the Q&A session will depend on the time zone in which they are located. Posters and demo abstracts can still be [ https://www.vibconferences.be/events/gcc2021-virtual-edition#abstracts | submitted ] until the 14th of June . Feel free to distribute this message further in your network. We hope to meet you online! Kim De Ruyck on behalf of the GCC2021 Organizing Committee -- Kim De Ruyck PhD Coordinator ELIXIR Belgium VIB-UGent Center for Plant Systems Biology Technologiepark 71, 9052 Ghent, Belgium [ http://www.elixir-belgium.org/ | www.elixir-belgium.org ] [ https://twitter.com/ELIXIRnodeBE | @ELIXIRnodeBE ] [ http://eepurl.com/cl-xOX | Subscribe to our mailing list ]

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Fw: Vacancy Single Cell Core Project Manager
by Alexander Botzki 01 Jun '21

01 Jun '21

Dear colleagues, VIB is looking for a Single Cell Core Project Manager - please find more information at https://jobso.id/drc1 Best regards, Alex

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PhD position in artificial intelligence and metabolic engineering
by Thomas Abeel 01 Jun '21

01 Jun '21

Dear all, We are recruiting for a four year fully-paid PhD position in Computer Science and Artificial Intelligence at Delft University of Technology in collaboration with DSM. This project combines knowledge from metabolic engineering and artificial intelligence to improve development cycles of bio-based products and optimizing industrial-scale biobased processes This position is part of a group of 5 that cover the complete production scale from factory to microbes. https://www.tudelft.nl/over-tu-delft/werken-bij-tu-delft/vacatures/details?… #phd #artificialintelligence #metabolomics #tudelft kind regards, Thomas

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Scientist Bioinformatics, SkylineDx (Rotterdam)
by Domenico Bellomo 31 May '21

31 May '21

Dear community members, this is to inform you about an opening for a Scientist Bioinformatics at SkylineDx, in Rotterdam. Please, forward this email to suitable candidates in your network! The job As a Scientist Bioinformatics, you will perform research, feasibility and development work for molecular diagnostic assays, including microarrays and NGS, with the goal of improving existing assays and building new ones. You will be working with internationally renowned academic partners and SkylineDx’ multidisciplinary development team: scientists, lab technicians, clinical study team, software engineers, and the QA/RA department. Furthermore, you will contribute to the preparation of assay registration files, scientific publications, and presentations regarding the research you are performing. Together we ensure the validation and implementation of clinically relevant scientific discoveries into reliable medical diagnostic assays for diagnosis, prognosis and drug effectiveness prediction that will ultimately contribute to improved patient care. The company SkylineDx is a high-tech commercial stage biotech company headquartered in Rotterdam (the Netherlands) with a second office and certified laboratory in San Diego (CA, United States). We have a dedicated team with unique expertise to discover novel gene-based biomarkers and develop them into registered (companion) diagnostics, ready for commercialization. As an innovative company, we are continuously seeking ambitious colleagues with an academic background or working experience who share our ambition to build a world class diagnostics company that brings gene signature-based diagnostic tests to patients and their physicians. More info: https://www.skylinedx.com/jobs/scientist-bioinformatics Apply here: info(a)skylinedx.com<mailto:info@skylinedx.com> Best regards, Domenico Bellomo Domenico Bellomo Head of Bioinformatics [cid:image001.png@01D6F3E4.EF82D430] SkylineDx BV Brainpark II – Building XI Lichtenauerlaan 40 3062ME Rotterdam The Netherlands +31 (0)10 – 72 00 316 <http://skylinedx.com/> [cid:image002.png@01D6F3E4.EF82D430] <https://www.linkedin.com/company/skylinedx-bv/> [cid:image003.png@01D6F3E4.EF82D430] <https://twitter.com/skylinedx> [cid:image004.png@01D6F3E4.EF82D430] <https://twitter.com/skylinedx> <https://twitter.com/skylinedx> <https://twitter.com/skylinedx> <https://twitter.com/skylinedx>

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BSC: Life Sciences vacancy
by BSC Human Resources 31 May '21

31 May '21

Dear all, We would like to inform you about a new job opportunitiy offered by Barcelona Supercomputing Center: - Junior researcher in cancer germline genetics (RE1). Deadline: 16 July, 2021 Link here <https://www.bsc.es/join-us/job-opportunities/19621lscbre1> 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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PhD position - with link
by Lieven Sterck 28 May '21

28 May '21

FYI >> Begin forwarded message: >> From: Alexander Jüterbock < [ mailto:Alexander-Jueterbock@web.de | >> Alexander-Jueterbock(a)web.de ] > >> Subject: PhD position - with link >> Date: 27 May 2021 at 21:39:01 CEST >> To: [ mailto:yves.vandepeer@psb.ugent.be | yves.vandepeer(a)psb.ugent.be ] >> Dear Yves, >> I would like to ask whether you could share the following PhD position on >> 'Computational Exploitation of Brown Algal Genomes' to potentially interested >> and suitable candidates? This is a position aiming to exploit the Phaeoexplorer >> data (project under Mark Cock, Roscoff). >> [ >> https://www.jobbnorge.no//en/available-jobs/job/206001/phd-fellowship-3-yea… >> | >> https://www.jobbnorge.no//en/available-jobs/job/206001/phd-fellowship-3-yea… >> ] >> Thank you and best wishes, >> Alexander >> -- >> Alexander Jueterbock >> webpage: [ http://www.marinetics.org/ | www.marinetics.org ] >> Office: >> Algal and microbial biotechnology divison >> Faculty of Biosciences and Aquaculture >> Nord University >> Postbox 1490 >> 8049 Bodø >> Norway >> Tel.: +47 755 17185 >> Home: >> Holten 11 >> 8215 Valnesfjord >> Norway >> +47 97464093 > Prof. Dr. Yves Van de Peer > Department of Plant Biotechnology and Bioinformatics, Ghent University > VIB - UGent Center for Plant Systems Biology > Technologiepark 71, B-9052 Ghent, Belgium > Phone: +32 (0)9 331 3807 > Cell Phone: +32 (0)476 560 091 > [ mailto:yves.vandepeer@psb.ugent.be | email: yves.vandepeer(a)psb.ugent.be ] > [ http://www.vandepeerlab.org/ | www.vandepeerlab.org ] > Department Chair > Part-time Professor at the Centre for Microbial Ecology and Genomics, Department > of Biochemistry, Genetics and Microbiology, University of Pretoria, Pretoria, > South Africa > Part-time Professor at the College of Horticulture, Academy for Advanced > Interdisciplinary Studies, Nanjing Agricultural University, Nanjing 210095, > China > Orchid ID: [ https://orcid.org/0000-0003-4327-3730 | > https://orcid.org/0000-0003-4327-3730 ] > Google Scholar: [ https://scholar.google.com/citations?user=tBs2BVMAAAAJ&hl=en | > https://scholar.google.com/citations?user=tBs2BVMAAAAJ&hl=en ] > 6th International Conference on Plant Genome Evolution: [ > https://www.elsevier.com/events/conferences/plant-genome-evolution | > https://www.elsevier.com/events/conferences/plant-genome-evolution ] > AE for Frontiers in Genetics, Genome Biology & Evolution, PeerJ, Current Plant > Biology, The Plant Journal

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Postdoc positions in systems biology and applied mathematics (France)
by Clemence Frioux 26 May '21

26 May '21

Dear all, The bioinformatics and systems biology team of [ https://www.inria.fr/en | Inria ] Bordeaux (France) is recruiting two postdocs starting this fall. The project aims at modelling the spatio-temporal dynamics of the gut microbiota . Both positions are funded for two years . We are looking for a systems biologist interested in metabolic modelling and reasoning . More details [ https://jobs.inria.fr/public/classic/fr/offres/2021-03628 | here ] . The second profile we are looking for is an applied mathematician who will work on metamodelling for metabolic and PDE models coupling . More details [ https://jobs.inria.fr/public/classic/fr/offres/2021-03660 | here ] . Do not hesitate to contact me for further information. We would appreciate that you share the job offers with your contacts. Sincerely, -- Clémence Frioux, PhD Junior researcher +33 5 24 57 40 58 clemence.frioux(a)inria.fr [ https://cfrioux.github.io/ | cfrioux.github.io ] CENTRE DE RECHERCHE BORDEAUX — SUD-OUEST 200 avenue de la Vieille Tour 33405 Talence, France [ https://www.inria.fr/en | www.inria.fr ]

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Open Position
by Ahmed Mahfouz 26 May '21

26 May '21

Dear All, We have an open position for a PhD student at the Department of Human Genetics at Leiden University Medical Center. We are looking for an enthusiastic PhD candidate to work on a joint project between the computational and functional genomics group ( https://www.mahfouzlab.org/) and the exon skipping group ( http://www.exonskipping.nl/) In this project, we will use spatial transcriptomics to study the spatial distribution of gene expression in the brain of Duchenne mouse models to understand the role of dystrophin in the brain. If you are interested, please apply here: https://www.lumc.nl/over-het-lumc/werken-bij/overzicht/PhD-kandidaat-Humane… Don’t hesitate to contact us if you have further questions on the nature of the positions! Please spread the news! *Ahmed Mahfouz, PhD **| Assistant **Professor, Department of Human Genetics* Leiden University Medical Center | Dept. of Human Genetics P.O. Box 9600, 2300 RC Leiden | Postal zone S4-P Room R-04-022 | Phone +31 71 52 69513 https://www.mahfouzlab.org/

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