April 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 bio-informatica/data science for life sciences
by Ingrid Paffen 29 Apr '22

29 Apr '22

De Hogeschool van Arnhem en Nijmegen heeft een vacature voor een docent bio-informatica/data science for life sciences Meer informatie is terug te vinden op onze website: 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…> Met vriendelijke groet, 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| [cid:image001.png@01D8562A.BB2EC7D0]

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PhD position and student jobs in the area of DNA Storage
by Lena Wiese 28 Apr '22

28 Apr '22

[Apologies for crossposting] One open PhD position and several student assistant positions in the area of DNA Storage at Fraunhofer Institute for Toxicology and Experimental Medicine ITEM (Hannover, Germany). The aim of the position is to develop novel bio-based storage media as well as novel algorithms for error-correcting codes and data compression. We seek people with a Master degree in Computer Science, Bioinformatics, Mathematics, Physics or (Electrical) Engineering for the PhD position (as well as students in these areas for the student assistant positions). You will become part of a highly motivated team in an exciting and innovative research environment at the interface between biotechnology, electrical engineering, mathematics and computer science For more information and to submit your application: Link: https://jobs.fraunhofer.de/job/Hannover-Wissenschaftlicher-Mitarbeiterin-zu… Job reference number: 23302 Best regards Lena Wiese -- Prof. Dr. Lena Wiese Database Technologies and Data Analytics Goethe University Frankfurt http://www.dbda.cs.uni-frankfurt.de/ http://wiese.free.fr

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Vacature docent bio-informatica/data science for life sciences
by Martijn van der Bruggen 22 Apr '22

22 Apr '22

De Hogeschool van Arnhem en Nijmegen heeft een vacature voor een docent bio-informatica/data science for life sciences Meer informatie is terug te vinden op onze website: 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…> Met vriendelijke groet, 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 | www.han.nl<http://www.han.nl/> | werkdagen maandag, dinsdag, woensdag, donderdag, vrijdag| [cid:image001.png@01D8562A.BB2EC7D0]

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PhD Positions in Computational Research, Data Science and AI at the German Cancer Research Center (DKFZ)
by DKFZ PhD Program 22 Apr '22

22 Apr '22

Dear Colleague, I would like to draw your attention to our International PhD Program at the German Cancer Research Center (DKFZ) in Heidelberg, Germany, which might be of interest to your students who are seeking further research in the area of Computational Research, Data Science and Artificial Intelligence. The application deadline is 15. May 2022 and more information about the program and how to apply online can be found at https://www.dkfz.de/en/phd-program/index.html?campaign=phd/compmsc I would be very grateful if you could forward this information and the infosheet attached to potential candidates at your institution. If you would prefer not to receive similar e-mails in the future, please do not hesitate to contact me. Many thanks and best wishes, Michaela Steiner PhD Program Office DKFZ International PhD Program (M070) German Cancer Research Center (DKFZ) Foundation under Public Law Im Neuenheimer Feld 280 69120 Heidelberg Germany phone: +49 6221 42-3426 www.dkfz.de<http://www.dkfz.de/>/phd [cid:image003.jpg@01D37287.86ACA850] Management Board: Prof. Dr. med. Michael Baumann, Ursula Weyrich VAT-ID No.: DE143293537

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Three jobs at the CBIO lab, UCLouvain, de Duve Institutes, Brussels
by Laurent Gatto 21 Apr '22

21 Apr '22

Three positions in the CBIO lab at the de Duve Institutes, Brussels: - A computer scientist position to model and build an IT infrastructure to track patients, samples and multi-omics data. - A bioinformatics scientist to implement the multi-omics data processing and integration pipelines. - A bioinformatician/data scientist focusing on spatial proteomics, post-translational modification and machine learning. Some more details here https://lgatto.github.io/cbio-jobs-2022/ of feel free to get in touch. Laurent --- Prof Laurent Gatto Computational Biology Unit (CBIO) de Duve Institute - UCLouvain Avenue Hippocrate, 75 - bte B1.74.10 1200 Brussels, Belgium Tel: +32 (0)2 764 74 15 http://lgatto.github.io/about

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CMSB 2022: last CFP
by Ion Petre 19 Apr '22

19 Apr '22

CMSB 2022: last call for papers ============================== September 14-16, 2022 at the University of Bucharest, Romania CMSB 2022 website: https://fmi.unibuc.ro/en/cmsb-2022/ CMSB series website: https://cmsb.sciencesconf.org/ CMSB, the conference on Computational Methods in Systems Biology, aims to bring together researchers from across the biological, mathematical, computational, and physical sciences, interested in the modelling, simulation, analysis, inference, design, and control of biological systems. IMPORTANT NOTE CONCERNING THE COVID-19 PANDEMIC CMSB 2022 is planned as a physical, in-person event, with certain support for remote presence, both for speakers and for other participants who are unable or unwilling to come. Depending on the COVID-19 pandemic situation, we may have to switch the conference to an online-only mode. This will be decided by the end of June 2022. INVITED SPEAKERS Alessandra Carbone (Sorbonne Université, France) Gabriela Chiosis (Memorial Sloan Kettering Cancer Center, USA) Loïc Paulevé (Laboratoire Bordelais de Recherche en Informatique, France) Alfonso Rodríguez-Patón (Universidad Politécnica de Madrid, Spain) Erik Sonnhammer (Stockholm University, Sweden) IMPORTANT DATES (all dates are AoE) Abstract Submission: extended to May 8, 2022 Paper Submission: extended to May 15, 2022 Notification: June 10, 2022 Camera Ready: June 17, 2022 Poster/highlight talk: July 1, 2022 Conference: September 14-16, 2022 PAPER SUBMISSION CMSB 2022 solicits high quality papers reporting research results and/or tools related to the topics mentioned below. In this call we solicit two types of papers: regular and tool papers (in a later call we will also solicit posters and highlight talks): REGULAR papers should describe original work that has not been previously published and is not under review for publication elsewhere. Accepted regular papers will be published as part of the conference proceedings in the Springer LNBI series. Papers in this category should not exceed 15 pages in the Springer LNBI style (including main figures and tables, excluding references and possible appendices). TOOL papers should present new tools or public websites, new tool components or novel extensions to existing tools or websites supporting biological system modelling, analysis, simulation, or similar. Submissions must include information on methods, tool availability, and selected application results. They should be original and not previously published in a similar form. Accepted tool papers will be published as part of the conference proceedings in the Springer LNBI series. Papers in this category should have 4-6 pages in the Springer LNBI style (including main figures and tables, excluding references and possible appendices). Each paper will undergo a thorough review process. The paper may be supplemented with a clearly marked appendix, which will be reviewed at the discretion of the program committee. Papers must be submitted electronically as PDF files via EasyChair: https://easychair.org/conferences/?conf=cmsb2022 TOPICS * formalisms for modelling biological processes; * methods and tools for biological system analysis, modelling and simulation; * frameworks for model verification, validation, analysis, and simulation of biological systems; * high-performance methods for computational systems biology; * identification of biological systems; * applications of machine learning and data analytics in biology; * network modelling, analysis, inference; * automated parameter and model synthesis; * model integration and biological databases; * multi-scale modelling and analysis methods; * design, analysis, and verification methods for synthetic biology; * methods for biomolecular computing and engineered molecular devices; * data-based approaches for systems and synthetic biology; * optimality and control of biological systems; * modelling, analysis and control of microbial communities. AWARDS CMSB 2022 will offer two awards: the best paper award and the best student paper award. The awards are sponsored by Springer Nature. The winners will be announced at the conference. ORGANIZATION COMMITTEE David Pacioianu, University of Bucharest, Romania Andrei Paun, University of Bucharest, Romania (co-chair) Ion Petre, University of Turku, Romania (co-chair) Nicoleta Siminea, University of Bucharest Joel Sjöberg, University of Turku, Finland PROGRAM COMMITTEE Alessandro Abate – University of Oxford (UK) Paolo Ballarini – Centrale Supélec (France) Daniela Besozzi – University of Milan Bicocca (Italy) Luca Cardelli – University of Oxford (UK) Milan Češka – Brno University of Technology (Czech Republic) Eugenio Cinquemani – Inria Grenoble-Rhône-Alpes (France) Eugen Czeizler – University of Helsinki (Finland) Franck Delaplace – Université Paris-Saclay (France) Jerome Feret – Inria Paris (France) Clémence Frioux – Inria Bordeaux (France) Ashutosh Gupta – IIT Bombay (India) Monika Heiner – Brandenburg Technical University Cottbus-Senftenberg (Germany) Jane Hillston – University of Edinburgh (UK) Tommaso Mazza – CSS Mendel (Italy) Andrzej Mizera – University of Luxembourg (Luxembourg) Jun Pang – University of Luxembourg (Luxembourg) Nicola Paoletti – University of London (UK) Loïc Paulevé – CNRS, LaBRI (France) Andrei Paun – University of Bucharest, Romania, co-chair Ion Petre – University of Turku, Finland, co-chair Tatjana Petrov – University of Konstanz (Germany) Ovidiu Radulescu – University of Montpellier France) Andre Ribeiro – University of Tampere (Finland) Maria Rodriguez Martinez – IBM Zürich Research Laboratory (Switzerland) Olivier Roux – École Centrale de Nantes (France) David Šafránek – Masaryk University (Czech Republic) Carolyn Talcott – SRI International (USA) Jing Tang – University of Helsinki (Finland) Adelinde Uhrmacher – University of Rostock (Germany) Andrea Vandin – Technical University of Denmark (Denmark) Verena Wolf – Saarland University (Germany) Christoph Zechner – Max Planck Institute of Molecular Cell Biology and Genetics (Germany) TOOL EVALUATION COMMITTEE Georgios Argyris – Technical University of Denmark, Copenhagen (Denmark) Candan Çelik – Comenius University, Bratislava (Slovakia) Anastasis Georgoulas – University College London (UK) Lukrécia Mertová – Heidelberg Institute for Theoretical Studies (Germany) Samuel Pastva – IST Austria (Austria) Misbah Razzaq – Inserm BPH, Bordeaux (France) David Šafránek – Masaryk University (Czech Republic), chair Jakub Šalagovič – KU Leuven (Belgium) Matej Trojak – Masaryk University (Czech Republic) STEERING COMMITTEE Luca Cardelli – University of Oxford (UK) François Fages – INRIA (France) Monika Heiner – Brandenburg Technical University Cottbus-Senftenberg (Germany) Tomasso Mazza – CSS Mendel (Italy) Satoru Miyano – University of Tokyo (Japan) Ion Petre – University of Turku, Finland Gordon Plotkin – University of Edinburgh (UK) Corrado Priami – University of Pisa (Italy) Carolyn Talcott – SRI International (USA) Adelinde Uhrmacher – University of Rostock (Germany) Alessandro Abate – University of Oxford (UK) Eugenio Cinquemani – Inria Grenoble-Rhône-Alpes (France) Jun Pang – University of Luxembourg (Luxembourg) Loïc Paulevé – CNRS, LaBRI (France) Andrei Paun – University of Bucharest, Romania Tatjana Petrov – University of Konstanz (Germany) Verena Wolf – Saarland University (Germany) CONTACT All questions about the conference should be emailed to the organizers Ion Petre (ion.petre(a)utu.fi<https://mailto:ion.petre@utu.fi>) and Andrei Paun (apaun(a)fmi.unibuc.ro<https://mailto:apaun@fmi.unibuc.ro>).

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Openings Data Sciences and Quantitative Biology at AstraZeneca
by Sergio Martinez Cuesta 19 Apr '22

19 Apr '22

Hi all, We have a number of exciting opportunities to join the Data Sciences and Quantitative Biology at AstraZeneca. If you are looking for a move to doing research and development in the biopharmaceutical industry, have a look at the following link: https://pages.beamery.com/astrazeneca/page/quantitativebiology Best wishes, Sergio

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ISMB 2022 CompMS - Abstract submission deadline (April 21, 2022)
by Bittremieux, Wout 18 Apr '22

18 Apr '22

— ISMB 2022 CompMS – Abstract submission deadline (April 21, 2022) — Dear colleague, We would like to remind you that the abstract submission deadline for the Computational Mass Spectrometry (CompMS) session at the ISMB 2022 conference is April 21, 2022. We encourage you to submit your abstract today and join us during the ISMB 2022 conference in Madison, WI or virtually 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. 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 Keynote speakers The CompMS session will feature keynote presentations from the following leaders in the computational mass spectrometry field: * Dr. Ying Ge, UW Madison * Dr. Brian Searle, Ohio State University * Dr. Michael Shortreed, UW Madison * Dr. Gary Patti, Washington University in St. Louis Abstract submission deadline The abstract submission deadline for ISMB 2022 is approaching. 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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Invitation Big Data in Life Science Education Congress - 10 June 2022
by ALST Events 14 Apr '22

14 Apr '22

(English below) Beste collega’s, We willen jullie graag uitnodigingen voor het symposium ‘Big Data in Life Science Education’ op 10 juni 2022. Tijd: 09:00 – 18:00 uur Locatie: Avans Hogeschool, Hogeschoollaan 1, 4818 CR Breda Kosten: Geen Max. aantal inschrijvingen: 140 In de bijlage vinden jullie het voorlopig programma. Inschrijven kan via onderstaande link: https://forms.office.com/r/UJnCdFZVEE Delen van dit bericht wordt gewaardeerd! We hopen jullie te begroeten op 10 juni in Breda! Voor eventuele vragen kunnen jullie mailen naar events.ALST(a)avans.nl<mailto:events.ALST@avans.nl> Met vriendelijke groet, Namens de organisatie van ‘Big Data in Life Science Education’ Dear colleagues, We would like to invite you to the congress ‘Big Data in Life Science Education’ on 10 June 2022. Time: 09:00 – 18:00 uur Location: Avans University of Applied Sciences, Hogeschoollaan 1, 4818 CR Breda Costs: None Max. number of registrations: 140 You’ll find the preliminary program in the attachment. You can register via the link below: https://forms.office.com/r/UJnCdFZVEE Feel free to share this invitation! We hope to see you on the 10th of June in Breda! If you have any questions, please contact events.atls(a)avans.nl<mailto:events.atls@avans.nl> Best wishes, On behalf of the organization of ‘Big Data in Life Science Education’

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