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Job opportunity: Bioinformatician @ the Max Planck Institute for Multidisciplinary Sciences, Goettingen, Germany
by Sonja Lorenz 06 Aug '22

06 Aug '22

Job opportunity: Bioinformatician (f/m/d) @ the Max Planck Institute for Multidisciplinary Sciences, Goettingen, Germany Link to this job offer: https://www.mpinat.mpg.de/4179228/40-22?c=645962 <https://www.mpinat.mpg.de/4179228/40-22?c=645962> BACKGROUND: The Max Planck Institute for Multidisciplinary Sciences is a leading international research institute of exceptional scientific breadth. With more than 40 research groups and some 1,000 employees from over 50 nations, it is the largest institute of the Max Planck Society. The department of Tissue Dynamics and Regeneration (Dr. Jochen Rink) invites applications for a position as Bioinformatician (f/m/d) RESPONSIBILITIES: We study the fascinating ability of some planarian species to regenerate complete animals from random tissue pieces and we carry out worldwide field expeditions to study the evolution of regenerative abilities. Our approach encompasses various next generation sequencing techniques, including RNAseq, ATACseq, CHIPseq, Hi-C and long-read sequencing and comparative genomics. The Bioinformatician supports department members in the analysis and mining of NGS data sets, maintains the departmental analysis pipelines and databases and integrates or develops new analysis tools. The bioinformatician further interfaces with the Institute IT services and the computational service provider at the local university (GWDG). Close collaborations with department members and external contacts are a core aspect of the position. In addition, the pursuit of personal research interests is possible, including the mentoring of Masters or PhD students. REQUIREMENTS: * You hold a Master's degree or Ph.D. in a relevant subject area, e.g., biology, computational biology or computer sciences. * You have extensive experience and a proven track record in one or more of the following: RNAseq and differential expression analysis, single cell seq, Chip or ATACseq, genome assembly and annotation, comparative genomics. * You have hands-on experience with high performance computing and/or cluster management. * You are passionate about big data analysis and the ongoing developments in the field. * You are self-motivated, organized and independent. * You enjoy team work and being an active part of a collaborative research environment. WHAT WE OFFER: * Competitive research in an inspiring, world-class environment * Professional training, networking and career-development opportunities; free language courses * On-site health management: free fitness and yoga room, sports groups, beach volleyball league, and courses for a "moving lunch break" * A wide range of opportunities to balance work and family life, including an on-campus kindergarten and vacation care * Spacious on-site cafeteria with diverse meals; espresso bar * Initiatives for sustainability and a green environment with an on-site biotope ABOUT US: We are a young department at the Max Planck Institute for Multidisciplinary sciences, part of one of Germany's premier research campuses. We represent the organismal end of the wide spectrum of research activities at the institute and investigate the mechanistic and evolutionary underpinnings of planarian regeneration. We are a thoroughly international and interdisciplinary department and our working language is English (knowledge of German is not required). Our department maintains its own state-of -the art high performance computing clusters and we have access to large computation resources elsewhere on Campus and in Germany. We enjoy generous funding by the Max Planck Society, the ERC and other funding programs. The historic town center of Göttingen in close proximity offers rich cultural opportunities and a vibrant student scene, while its green surroundings are ideal for running, hiking, cycling and other outdoor activities. POSITION DETAILS: * Payment and benefits are based on the German Public Service Payscale (TVöD Bund) guidelines. The positions should be filled as soon as possible; the exact start date is flexible. * The Positions are initially limited to two years with a possibility of extension. * The Max Planck Society is committed to increasing the number of individuals with disabilities in its workforce and therefore encourages applications from such qualified individuals. The Max Planck Society strives for gender and diversity equality. We welcome applications from all backgrounds. HOW TO APPLY: Please submit your application including a cover letter (explaining background and motivation), CV, transcripts and publication record (if applicable) and the contact addresses of 3 references (if possible) preferably as a single PDF file to: ausschreibung40-22(a)mpinat.mpg.de <mailto:ausschreibung40-22@mpinat.mpg.de> DEADLINE: Review of applications will begin immediately and continue until the position is filled. Max Planck Institute for Multidisciplinary Sciences Department "Tissue Dynamics and Regeneration" Dr. Jochen Rink Am Fassberg 11 37077 Göttingen Germany www.mpinat.mpg.de/de/rink <http://www.mpinat.mpg.de/de/rink>

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Postdoctoral position bioinformatics in Brussels
by ROOMAN Marianne 05 Aug '22

05 Aug '22

The Computational Biology and Bioinformatics group of the Brussels University (ULB) (https://3bio.polytech.ulb.be/en/bioinfo) is seeking candidates for a postdoctoral position. Research context: Unraveling the biophysical mechanisms that drive single nucleobase substitutions in different regions of the human genome is one of the key questions of the post-genomic era. These mutations, whether inherited or somatic, are potentially responsible for a huge range of rare and complex diseases. The rationalization of these mechanisms is highly intricate and often requires a diverse set of approaches, since base substitutions depend on the nucleotide sequence context and can be triggered by a wide range of physical, chemical or biological factors. Objective: The AtOme project aims to bridge the gap between the atomic-level characterization of mutagenesis processes and the resulting phenotypic traits, by using innovative multiscale computational approaches combining genomic and proteomic data with machine learning techniques. The end-goal of the project is the deployment of a novel predictor of genome mutability and of the impact of mutations on regulatory mechanisms, protein fitness and pathogenicity. The project will be carried out within a highly multi-disciplinary and enthusiastic bioinformatics team, in collaboration with molecular biologists and clinicians who are experts in complex diseases (cancer, autism). Offer: We are offering you a full-time postdoctoral position for 2 years, to come and work on the AtOme project in a laboratory with strong expertise in the field of bioinformatics and an attentive care to our work culture. The starting date is flexible (between now and January 2023) and there is a possibility of extension through an FNRS postdoctoral research grant or a Marie Curie EC grant. Required: - PhD degree in Sciences (Bioinformatics, Bioengineer, Physics, Chemistry, Informatics). - Excellent programming skills. - Excellent publication record. - Maximum 6 years research experience after PhD. - International mobility (maximum 24 months of residence in Belgium in the last 3 years). Desirable: Experience in machine learning and/or bioinformatics. Contact: Please submit: (1) a cover letter detailing your background and interest in the position, (2) a full CV and (3) two references (with email address and phone number), to Pr. M. Rooman (marianne.rooman(a)ulb.be) Application deadline: October 1, 2022.

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VIB/ELIXIT training - Don't miss the opportunity to join!
by Bruna Piereck Moura 04 Aug '22

04 Aug '22

[cid:image001.png@01D8A7E8.AD3C6FA0] [signature_2008044598] Stay tuned! Donnot miss the opportunity to improve your skills and talk science! Dear, As soon as September you have the chance to join us once again at the Git&GitHub<https://training.vib.be/all-trainings/introduction-git-github-4> training! To happen on the 13th of September in Ghent. Click in the link to have more information and join us for this great Face-to-face session. Introduction to Git & GitHub 13 June 2022 - Ghent This workshop will take you through the basic use of Git and GitHub. Git is a free and open source distributed version-control system designed to maintain code, track changes, recover old versions and collaborate with other developers. Subscription and info: https://training.vib.be/all-trainings/introduction-git-github-4 VIB Bioinformatics Core ELIXIR Belgium Training Coordinator Technologiepark-Zwijnaarde 75 9052 Zwijnaarde, Belgium For questions: Bruna Piereck tel +32 0497 2988 73

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Vacancy for scientific research coordinator
by Kemmeren-2, P.P.C.W. (Patrick) 04 Aug '22

04 Aug '22

Dear all, Within the Princess Maxima Center for Pediatric Oncology we are looking for a scientific research coordinator who can help us in our journey in building an ML and AI ready data infrastructure and make the most out of the vast amounts of data generated. A background in machine learning, AI or bioinformatics is very much welcomed! Interested? Then apply through: https://werkenbijprinsesmaximacentrum.nl/en/vacancy/scientific-research-coo… 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_3129348511] [signature_1704258484] 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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Callout for workshop "Simulating cellular behaviours: advancing HPC-enabled Computational Biology"
by Arnau Montagud 03 Aug '22

03 Aug '22

Dear all, >From PerMedCoE <https://permedcoe.eu/> , BSC and EMBL-EBI are organising a workshop in the ECCB 2022 conference <https://eccb2022.org/> titled “Simulating cellular behaviours: advancing HPC-enabled Computational Biology” that will take place virtually on the 13 of September 2022, from 13h30 to 16h30 (Paris, Madrid, Berlin, Barcelona time). The aim is to bring together researchers that develop or employ methodologies and tools for data analytics, modelling and/or machine learning focusing on simulating cellular behaviours. The focus will be on identifying ways to combine HPC-based methods to scale up computation with mechanistic and statistical modelling to build predictive dynamical models. The keynote speaker will be Dr Elena J Fertig <https://fertiglab.com/> , Director of the Research Program in Quantitative Sciences, Co-Director of the Convergence Institute and Associate Director of Quantitative Sciences at the Johns Hopkins Kimmel Cancer Center. Additionally, we will have 6 selected talks from a call from abstracts for which we would like to gather interesting (and interested) people. Thus, *we kindly ask you to send contributions to this call for abstracts and to spread the word to interested parties*. Note that PerMedCoE can cover registration costs of several participants to the workshop. Specifically, PerMedCoE encourages the participation of young female researchers/technicians. Contact us if interested. Link to the workshop details: https://permedcoe.eu/call-for-abstracts-simulating-cellular-behaviours-adva… and https://eccb2022.org/ntb-w03/ Link to the call for abstracts: https://easychair.org/conferences/?conf=eccb202 (select “NTB-W03 | Simulating cellular behaviours: advancing HPC-enabled Computational Biology” track) – Deadline extended to 21st August Link to the tweet announcing the call for abstracts: https://twitter.com/PerMedCoE/status/1552896796795469824 Best regards, Arnau Montagud Computational Biology Group Life Sciences Department Barcelona Supercomputing Center (BSC)

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Postdoc position in Ireland available
by Claesson, Marcus 28 Jul '22

28 Jul '22

Hi all, A PostDoc position is available in my lab to investigate the role of the microbiome in inflammatory bowel disease. Search 058831 on http://ore.ucc.ie for full details. Closing date 1st Sept. Regards, Marcus -- Marcus J. Claesson, PhD Associate Professor in Bioinformatics School of Microbiology & APC Microbiome Ireland University College Cork Western Road, Cork, Ireland Tel: +353-(0)21-4901390 Email: m.claesson(a)ucc.ie<mailto:m.claesson@ucc.ie> http://orcid.org/0000-0002-5712-0623

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Postdoctoral postion bioinformatics in Brussels
by Tom Lenaerts 28 Jul '22

28 Jul '22

We are recruiting a postdoctoral researcher to develop, in collaboration with the Oligogenic Team at (IB)2, novel methods to predict the effect of combinations of variants in disease phenotypes, and more precisely discerning pathogenic modifications associated with known disease-causing genes. This research builds on the Variant Combinations Pathogenicity Predictor work (https://doi.org/10.1073/pnas.1815601116 <https://doi.org/10.1073/pnas.1815601116>) as well as its associated developments like ORVAL (http://orval.ibsquare.be <http://orval.ibsquare.be/>). The position would be in the context of the Interuniversity Institute of Bioinformatics in Brussels (http://www.ibsquare.be <http://www.ibsquare.be/>) and the ULB Machine Learning group (http://mlg.ulb.ac.be <http://mlg.ulb.ac.be/>) under the supervision of professor Tom Lenaerts and in collaboration with Dr. Sofia Papadimitriou (Université Libre de Bruxelles), the PhDs working on this topic and the other partners of the G4BXL project. The position will be closed as soon as a suitable candidate is found. Detailed information via EurAxess: https://euraxess.ec.europa.eu/jobs/697360 <https://euraxess.ec.europa.eu/jobs/697360> More information, contact Tom.Lenaerts(a)ulb.be <mailto:Tom.Lenaerts@ulb.be>

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INSPIRE Postdoctoral Fellowship Programme
by Thinnes, Cyrille 26 Jul '22

26 Jul '22

Dear all, At the Molecular Systems Physiology group<https://www.thielelab.eu/> at NUI Galway we hereby present an opportunity for talented postdoctoral fellows to conduct biocomputational research in human-microbiome interactions in the context of food systems and health for societal impact. INSPIRE is a Horizon 2020 Marie Skłodowska-Curie Actions (MSCA) postdoctoral fellowship programme for intersectoral training, career development, and mobility. INSPIRE will offer 20 fellowship positions for incoming postdocs to focus on Microbiome and the Sustainable Development Goals aimed at tackling global societal challenges related to food systems and health. INSPIRE will fund 20 two-year prestigious postdoctoral fellowships for incoming mobility at APC Microbiome Ireland and participating host institutions, also including NUI Galway. Linked are more information about the INSPIRE programme<https://www.ucc.ie/en/inspire/> and application process<https://www.ucc.ie/en/inspire/apply/>. Best wishes, Cyrille Cyrille Thinnes, MBA, DPhil Engagement Manager for the Virtual Metabolic Human<https://vmh.life/> Research Fellow Molecular Systems Physiology Group University of Galway | Ryan Institute | APC Microbiome Ireland School of Medicine Orbsen Building | Galway, Ireland https://www.thielelab.eu

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Postdoc position @ Aertslab
by Stein Aerts 25 Jul '22

25 Jul '22

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WIVACE 2022 - Paper submission DEADLINE APPROACHING (25 July, 2022)
by Francesco FONTANELLA 22 Jul '22

22 Jul '22

*WIVACE 2022* *XVI International Workshop on Artificial Life and Evolutionary Computation * *Gaeta (LT), Italy* *14-16 **September** 2022* Web site: http://wivace2022.unicas.it/ The International Workshop on Artificial Life and Evolutionary Computation aims at bringing together researchers working in Artificial Life and Evolutionary Computation to present and share their research in a multidisciplinary context. The workshop provides a forum for the discussion of new research directions and applications in these fields, where different disciplines could effectively meet. It was first held in 2007 in Sampieri (Ragusa), as the incorporation of two previously separately running workshops (WIVA and GSICE). After the success of the first edition, the workshop was organized in the following years in Venice (2008), Naples (2009), Parma (2012), Milan (2013), Vietri (2014), Bari (2015), Salerno (2016), Venice (2017) and Parma (2018). Interested authors are invited to contribute papers on theory and applications of Artificial Life, Evolutionary Computation, and complex smart systems. Contributions solicited cover a variety of topics including but not limited to: - Bioinspired Algorithms - Bioinspired Robotics - Coevolution and Collective Behavior - Complex Systems - Data-driven Self-regulating Systems - Evolutionary Computation - Evolutionary Approaches to Big Data and Big Data Streams - Evolutionary Learning Systems - Evolutionary Agents - Modeling and Simulation of Artificial and Biological Systems - Modeling and Simulation of Social and Economical Systems - Modeling of Business Intelligence Systems - Neural Computers - Neuroevolution: Improving Deep Learning with Evolutionary Computation - Self-organizing Cyber-Physical Systems - Socio-inspired Swarm Intelligence Algorithms - Synthetic and Systems Biology - Systems Chemistry - Theories and Applications of Artificial Life *SUBMISSION DETAILS* Contributions may be submitted in one of the following forms: - Full research papers (up to 12 pages). - Simple Abstracts (1-4 pages). Full research papers should present original unpublished work. Simple abstracts should describe original work in progress or a summary of a full paper. The submissions will be peer-reviewed by at least three members of the program committee. The authors of accepted papers or abstracts will have to improve their papers on the basis of reviewers’ comments and will be asked to send a camera-ready version of their manuscripts. At least one author of each accepted work has to register for the conference, attend the conference and present his work. We have contacted Springer to publish the proceedings of Wivace 2022 in Springer's Communications in Computer and Information Science (CCIS) proceedings series, which is abstracted/indexed in DBLP, Google Scholar, EI-Compendex, Mathematical Reviews, SCImago, Scopus. Accepted abstracts describing unpublished work will be considered for publication of extended versions (up to 12 pages) in the same volume. Submission instructions can be found here: http://wivace2022.unicas.it/submission.html *IMPORTANT DATES* Abstract/paper submission deadline: 25 July 2022 (*extended*) Notification of acceptance: 12 August 2022 Early Registration: 22 August 2022 *GENERAL CHAIRS* Claudio De Stefano (University of Cassino and Southern Lazio) - destefano(a)unicas.it Francesco Fontanella (University of Cassino and Southern Lazio) - fontanella(a)unicas.it *CONTACTS* Francesco Fontanella (fontanella(a)unicas.it)

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