March 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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Vacancy: PhD student biomedical data science at Maastricht University
by Adriaens, Michiel (MACSBIO) 01 Apr '22

01 Apr '22

Dear all, We have an opening for a PhD candidate at Maastricht University, on a collaborative project between the department of Human Biology and The Maastricht Centre for Systems Biology: https://www.academictransfer.com/en/310585/phd-candidate-at-fhml-school-nut… The PhD candidate will study liver metabolism in relation to the development of obesity and diabetes by performing analyses on large human datasets. Hence, we are looking for someone with a MSc in biomedical sciences, biomedical engineering, bioinformatics/systems biology or equivalent, with proven interest in the biochemical and functional aspects of nutrition and metabolism, and with experience in statistical data analysis. Please share and forward! Best wishes, Michiel Adriaens [macsbio-logo] [UM-logo] Dr. ir. Michiel E. Adriaens, PhD Assistant Professor Maastricht Centre for Systems Biology - MaCSBio Paul-Henri Spaaklaan 1, 6229 EN Maastricht, The Netherlands T +31433881123 E michiel.adriaens(a)maastrichtuniversity.nl<mailto:michiel.adriaens@maastrichtuniversity.nl>

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Postdoc position available for a (bio)statistician/(bio-informatician on multiplex digital PCR data analysis
by Ward De Spiegelaere 31 Mar '22

31 Mar '22

Dear colleagues, The Ghent University Digital PCR consortium (www.dpcr.ugent.be<http://www.dpcr.ugent.be>) has a postdoctoral position available for a (bio)statistician/(bio) informatician who will perform a project on automated multiplex analysis of digital PCR data. More info can be found here<https://career5.successfactors.eu/career?company=C0000956575P&career_job_re…>. You will have the opportunity to work in a dynamic world leading research team on digital PCR at Ghent University. This is a collaboration with the company Stilla Technologies, an innovative French company which developed the first six color digital PCR system. Please feel free to distribute this e-mail further. Kind regards Prof. Dr. Ward De Spiegelaere Associate Professor T +32 9 264 77 38| F +32 9 264 77 97 Laboratory of Veterinary Morphology Department of Morphology, Medical Imaging, Orthopaedics, Physiotherapy and Nutrition Campus Merelbeke, Salisburylaan 133 ingang 78, 9820 Merelbeke, Belgium [cid:image001.jpg@01D84056.1CA80C50]

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ECCB2022 | Deadlines extended for Proceedings, Highlight Papers and Applications!
by Eva Alloza 31 Mar '22

31 Mar '22

Dear colleagues, On behalf of the Organising Committee, please note the *ECCB2022 extended deadlines*: * *Call for Proceedings **- April 14 * * *Call for Highlight Papers **- April 14* * *Call for Applications **- May 12* * Call for Posters * Call for Workshops/SIGs - CLOSED * Call for Tutorials- CLOSED We encourage submitting your research: https://eccb2022.org/calls Help us disseminate the information within your research groups, institutions and colleagues: newsletter <https://bcocongress.com/newsbco/ECCB2022/06/06ECCB.html> below, post in twitter <https://twitter.com/ECCBinfo/status/1509455768692703232> and post in linkedin <https://www.linkedin.com/feed/update/urn:li:activity:6915254638522863616>. Warm regards, -- Eva Alloza Training coordinator and support officer Spanish National Bioinformatics Institute (INB/ELIXIR-ES) coordination node mail:eva.alloza@bsc.es web:http://inb-elixir.es Barcelona Supercomputing Center (BSC-CNS) Pl. Eusebi Güell, 1-3. E-08034 Barcelona, Spain ------------------------------------------------------------------------ 21st European Conference on Computational Biology 21st European Conference on Computational Biology <http://mail.eventsairmail.com/ls/click?upn=EU9ggqWL9UGtw-2FWRLoBKrtd8JsjWfs…> New submission deadline to send workshops! <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86EueByyahnvg…> The *submission deadline* has been *extended* until *Thu, 14 April 2022* for Proceedings and Highlight Papers and until *Thu, 12 May 2022* for Applications. Get your proposals ready! Proceedings *Proceedings* Thu, 14 Apr 2022 Read the call <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86EueByyahnvg…> Highlights *Highlight Papers* Thu, 14 Apr 2022 Read the call <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86EueByyahnvg…> Applications *Applications* Thu, 12 May 2022 Read the call <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86EueByyahnvg…> Posters *Posters* Thu, 02 Jun 2022 Read the call <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86EueByyahnvg…> Send your submission <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86GyIs3RJaME8…> Visit our website for more information *ECCB2022.org <http://mail.eventsairmail.com/ls/click?upn=EU9ggqWL9UGtw-2FWRLoBKrtd8JsjWfs…>* #ECCB2022 <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86I9M5CnW9VF-…> #ECCB2022 <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86IIhk8LA29p1…> *Organised by:* BSC <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86NN8S7iAhePN…> INB <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86ITKzm0FTLx7…> ELIXIR Spain <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86ITKzm0FTLx7…> Bco Congresos <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86IZ8Vkhn8oIW…> Facebook <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86JXpdeYbu-2F…> Twitter <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86EaVGS8wj4kB…> LinkedIn <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86LjbR4s-2BPd…> Instagram <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86FV50uhrxSD-…> Web Site <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86IZ8Vkhn8oIW…> E-Mail <mailto:congresos@bcocongresos.com> *TECHNICAL SECRETARIAT* Plaza Europa 17-19, 1st floor 08908 L'Hospitalet del Llobregat, Barcelona (Spain) +34 93 882 38 78 eccb2022(a)bcocongresos.com Policy Privacy <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86IZ8Vkhn8oIW…> | View Browser <http://mail.eventsairmail.com/ls/click?upn=vTVo9WAROVynOTbDemV86F-2F6kFiVgu…>

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Post-doctoral Fellow in Computational Biology
by Petr Nazarov 31 Mar '22

31 Mar '22

Dear All We are currently looking for a post-doctoral researcher in Bioinformatics, to be part of the interdisciplinary project related to glioblastoma heterogeneity and resistance. The person will conduct advanced transcriptomic data analyses (bulk and single-cell RNA-seq), with a focus on deconvolution methods. The objective is to identify signatures of treatment tolerant and resistant states. More information is available here: https://careers.lih.lu/jobs/detail/post-doctoral-fellow-in-computational-bi… Best regards Petr Petr Nazarov, PhD Group Leader, Multiomics Data Science Luxembourg Institute of Health Department of Cancer Research 1A-B, rue Thomas Edison, L-1445 Strassen Luxembourg Tel: +352 26970-385 Fax: +352 26970-719 Email: Petr.Nazarov(a)lih.lu<mailto:Petr.Nazarov@lih.lu> [https://files.lih.lu/outlookSignature/lih_v2.jpg] More about LIH : https://www.lih.lu/ Join us on Facebook and follow our activities on Twitter: https://www.facebook.com/Luxembourg.Institute.of.Health http://twitter.com/LIH_Luxembourg Petr.Nazarov(a)lih.lu<mailto:Petr.Nazarov@lih.lu> This message (including any attachments) is intended for the addressee only and may contain confidential and/or privileged information and/or information protected by intellectual property rights. If you have received this message by mistake, please notify the sender by return e-mail and delete this message from your system. You should not use, alter, copy or distribute this message or disclose its contents to anyone. E-mail transmission can not be guaranteed to be secure or error free as information could be intercepted, corrupted, lost, destroyed, arrive late or incomplete, or contain viruses. Luxembourg Institute of Health shall not be responsible nor liable for the proper and complete transmission of the information contained in this communication nor for any delay in its receipt or damage to your system.

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Immune-oncology bioinformatics position
by Sara Verbandt 31 Mar '22

31 Mar '22

Dear all, We are looking for a computational postdoctoral scientist to strengthen our team. We focus on the development, immunosuppression and therapy responses in colorectal tumors using multi-omics data analyses combined with functional studies. We would like to welcome a bioinformatician to strengthen our parallel analyses on how the immune environment develops in human and mouse for the selection of clinical targets More information and application details can be found via following link https://www.kuleuven.be/personeel/jobsite/jobs/60108353 Feel free to reach out to us with any questions on the position or our team Kind regards Sara ------------------------------------------ Sara Verbandt, PhD Postdoctoral researcher Molecular digestive oncology KU Leuven UZ Herestraat 49 - box 818 B-3000 Leuven Tel. +32 16 37 76 75<tel:+32%2016%2037%2076%2075>

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Registration open for: BioSB RNA-seq data analysis course - 9-13 May 2022 in Breda, The Netherlands
by Femke Francissen 29 Mar '22

29 Mar '22

*BioSB RNA-seq data analysis course* Date: 9-13 May 2022 Location: Breda, The Netherlands Organizers: BioSB research school, Erasmus Medical Center and Avans Hogeschool Website: https://www.dtls.nl/courses/rna-seq-data-analysis-2022/ --> *registration is open!* *Course coordinators* Andrew Stubbs, Erasmus MC Miaomiao Zhou, Avans University of Applied Sciences *Course credits* 1.5 ECTS *Course overview* This course covers the basic concepts and methods required for RNA-seq analysis. Particular attention is given to the data analysis pipelines for differential transcript expression and variant calling. Presentations are followed by hands-on computer sessions using Linux command line tools, Galaxy and R to directly apply and get more insight in the analysis methods. One afternoon is dedicated to the analysis of a new data set, allowing the students to refresh and extend their analysis skills. Students can also bring their own RNA-seq data for practicing. We will also explore the potential of long-read based RNA-seq in a Friday afternoon literature club. After the course, the presentations, practicals and test data will remain available for future reference. Software packages used are freeware. *Target audience* Participants for the RNA-seq course should preferably have participated in a general next-generation sequencing (NGS) course or otherwise have some hands-on experience with NGS data analysis. The course is aimed at PhD students and post-docs, but scientific programmers and data analysts with a background in biology and bioinformatics may also attend. *Learning outcomes* After having followed this course: - The participant has insight into the issues involved in good experimental design of RNA-seq experiments. - The participant knows and can perform analysis steps in reference-based and de novo RNA-seq data analysis, and visually present and judge the results for: - quality control and preprocessing, - finding differentially expressed genes, - variant calling, - cluster analysis, - classification analysis, - pathway testing. - The participant has insight in various RNA-seq platforms, their specificity in solving certain biological questions, and the bottlenecks in these applications. - The participant has insight into the different algorithms and options available to perform an analysis, and can make an informed choice. - The participant knows the pitfalls of existing analyses and is able to critically judge the statistical analysis of RNA-seq data performed by others. Read more and register now via: https://www.dtls.nl/courses/rna-seq-data-analysis-2022/ BioSB research school www.dtls.nl/biosb education(a)biosb.nl [image: signature_1684185780] <https://www.dtls.nl/biosb/>

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Virtuome Summer Undergraduate Research Experience
by Thinnes, Cyrille 29 Mar '22

29 Mar '22

Dear all, We will be running the now 3rd edition of Virtuome, our fully digital undergraduate research experience in digital health. We therefore invite talented STEAM undergraduate students (1st - final years) to apply for this summer's Virtuome 2022 edition<https://www.thielelab.eu/virtuome2022>. Of course, please feel free to share the direct link with your undergraduate networks. The application deadline is this coming Sunday, 3rd April 2022. https://www.thielelab.eu/virtuome2022 Best wishes, Cyrille Cyrille Thinnes, DPhil Engagement Manager for the Virtual Metabolic Human<https://vmh.life/> Research Fellow Molecular Systems Physiology Group National University of Ireland, Galway School of Medicine Orbsen Building | Galway, Ireland https://www.thielelab.eu

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ISMB 2022 CompMS - Save the date & call for proposals
by Bittremieux, Wout 28 Mar '22

28 Mar '22

— ISMB 2022 CompMS – Save the date & call for proposals — Dear colleagues, We are excited to announce that ISMB 2022 is returning with an in-person conference in Madison, WI, USA on July 10–14, 2022. Please join us for the Computational Mass Spectrometry (CompMS) COSI session on Monday July 11, 2022. The ISMB conference is the world's largest bioinformatics/computational biology conference. Every year it brings together scientists from computer science, molecular biology, mathematics, statistics, and related fields and provides an intense multidisciplinary forum for disseminating the latest developments in bioinformatics/computational biology. The conference fosters fresh dialogues, collaboration and learning opportunities, and is a gathering which shapes the future of the field. At the heart of the scientific program are ISCB’s Communities of Special Interest (COSIs), enabling community involvement and bolstering ISMB’s reputation as the leading conference in the field. The CompMS COSI promotes the efficient, high-quality analysis of mass spectrometry data through dissemination and training in existing approaches and discussion of new, innovative approaches. The CompMS initiative aims to exploit synergies between different mass spectrometry-based application domains, in particular proteomics, metabolomics, and lipidomics. A strong scientific and technical program showcases the best international developments in bioinformatics and computational biology, making ISMB 2022 a must attend event. Virtual participation options are also available. Date: July 11, 2022 (CompMS COSI) / July 10–14, 2022 (ISMB) Venue: Monona Terrace Convention Center, Madison, WI, USA / virtual Website: https://www.iscb.org/ismb2022 Key dates April 21, 2022: Abstract submission deadline May 12, 2022: Talk/poster acceptance notifications May 19, 2022: Late poster submission deadline May 26, 2022: Late poster acceptance notifications July 10–14, 2022: ISMB conference Call for proposals Abstract submission for ISMB 2022 is now open! Submit your abstract to ISMB to present your work at the leading bioinformatics/computational biology conference. Attend the CompMS session to learn about the latest algorithmic advances in computational mass spectrometry. Please remember to select the CompMS COSI as your session of interest upon submitting your abstract. Call for abstracts: https://www.iscb.org/ismb2022-submissions/abstracts We look forward to seeing you at ISMB! The CompMS organizing committee. Wout Bittremieux Isabell Bludau Lindsay Pino Timo Sachsenberg

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ELIXIR Belgium: FAIR data for Life Sciences research - Program available - Registration open
by Kim DE RUYCK 23 Mar '22

23 Mar '22

Dear, We are pleased to invite you for the ELIXIR Belgium meeting: FAIR data for Life Sciences Research which takes place on 18 May 2022 in Brussels . We have put together a programme touching on Open and FAIR science, demonstrating how infrastructure enables research, and mapping the different initiatives to share sensitive data across Europe. Next to the presentations, the event also includes panel discussions, an ask-me-anything session and ample networking time. [ https://www.eventbrite.co.uk/e/elixir-belgium-fair-data-for-life-sciences-r… | Link to the program and registration ] . The registration deadline is 3 May 2022. Kind regards, Kim De Ruyck 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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