- BBClist - maillist.psb.ugent.be

Two Postdoc positions in Bioinformatics
by BeNeLux bioinformaticians forum 12 Jun '23

12 Jun '23

Dear all, We would like to inform you about two positions available in the Dessimoz lab based in Switzerland. - Postdoc position in comparative genomics and bioinformatics: Working on a project about synteny, orthology, evolution, gene loss and tomato. Details: http://tinyurl.com/4fenkydr - Postdoc position in evolutionary structural bioinformatics: Reconstructing the last common ancestor of all animal’s genome! This position will be based in both Lausanne and Zurich with Prof. Pedro Beltrao's lab. Details: https://tinyurl.com/v3eu4e23 Best regards, Sina Majidian Dessimoz lab, University of Lausanne Switzerland

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Elixir 3D-bioinfo webinar on June 20th (5pm)
by BeNeLux bioinformaticians forum 06 Jun '23

06 Jun '23

Dear all, --- on behalf of Anastassia --- Please consider to register for the Elixir 3D-bioinfo webinar on June 20th (5pm). There will be two excellent talks on epistasis in protein evolution and design (by Charlotte Mitton, University of British Columbia, Vancouver) and a talk on AI-driven design of epitope-targeted antibodies (by Possu Huang, University of Stanford, California). In particular, if you're interested in nanobodies engineering, don't miss Possu's presentation! https://elixir-europe.org/events/3d-bioinfo-webinar-protein-design-and-evol… Best wishes, Anastassia Vorobieva

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Vacancy pre-Announcement: Data Scientist/PhD Student (Applied Bioinformatics)
by BeNeLux bioinformaticians forum 05 Jun '23

05 Jun '23

We are pleased to announce an upcoming vacancy for a Data Scientist/PhD Student to join our team. Recently, a VLAIO project has been approved, and we are looking for a skilled individual who can contribute to the project as a doctoral student. PLEASE NOTE that the text below is not an official vacancy announcement but a means to assess the potential interest of qualified candidates for an upcoming official vacancy announcement. The purpose of this text is to gauge the level of interest and potential response from eligible candidates before the official vacancy announcement is released. We appreciate your understanding. Project Description: The project focuses on a study on Dengue, wherein various techniques such as AIRR-seq, single-cell-seq, and Olink-proteomics will be performed. As a data scientist, your primary responsibility will be to conduct applied bioinformatics, integrating and analyzing diverse datasets. Additionally, effective reporting and communication of findings will be crucial. Responsibilities: * Conduct applied bioinformatics analysis, utilizing techniques such as AIRR-seq, single-cell-seq, and Olink-proteomics. * Integrate and analyze diverse datasets to derive meaningful insights. * Develop and implement statistical models and algorithms to analyze the data. * Collaborate with interdisciplinary teams to ensure effective communication and coordination. * Prepare detailed reports, presentations, and scientific publications to disseminate research findings. * Stay up-to-date with the latest advancements in the field of bioinformatics and data science. Requirements: * Master's degree * Strong background / afinity in bioinformatics and molecular biology. * Proficiency in programming languages such as Python, and/or R * Experience / Familiarity with analyzing high-throughput sequencing data, including AIRR-seq, single-cell-seq, Olink-proteomics or related techniques is preferred. * Solid understanding of statistical methods and data analysis techniques. * Excellent written and verbal communication skills in English. * Ability to work independently as well as collaboratively in a team environment. * Strong problem-solving skills and attention to detail. We offer: * The opportunity to contribute to an exciting research project on Dengue. * Full-time employment as a doctoral student at Ghent University. * Access to state-of-the-art laboratory facilities and computational resources. * Guidance and supervision from experienced researchers in the field. To apply: Please submit your interest, including a cover letter, CV to [ mailto:Filip.VanNieuwerburgh@UGent.be | Filip.VanNieuwerburgh(a)UGent.be ] . Lieven Sterck - Senior bioinformatician Bioinformatics VIB-UGent Center for Plant Systems Biology Ghent University Technologiepark-Zwijnaarde 71 - 9052 Ghent - Belgium Tel. +32(0)9 331 38 21 [ http://www.psb.ugent.be/ | www.psb.ugent.be ] Genome editing, cutting-edge technology for a sustainable agriculture [ https://originofimpact.sites.vib.be/ ]

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Data Engineer / Bioinformatician- AZ-Crick-Imperial College: Molecular Glue Discovery Partnership
by BeNeLux bioinformaticians forum 05 Jun '23

05 Jun '23

Hi all, We seek a talented, highly motivated candidate with experience modelling and analysing complex data sets with a strong knowledge of programming language(s) for the newly funded Molecular Glue Discovery Partnership - an exciting new research partnership between the Francis Crick Institute and Imperial College working in close collaboration with AstraZeneca, to develop systematic approaches to exploit endogenous protein degradation pathways to target undruggable disease-relevant proteins or protein complexes. More info: https://www.crick.ac.uk/careers-study/vacancies/2023-05-31-data-engineer/bi… Application deadline *21st June*. Thanks, Sergio

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PhD and Postdoc Positions in Artificial Intelligence for Bioinformatics
by BeNeLux bioinformaticians forum 03 Jun '23

03 Jun '23

We have two fantastic opportunities in the field of Artificial Intelligence for Bioinformatics. 1. PhD in Artificial Intelligence for Molecular Discovery: We are currently accepting applications for a three-year Ph.D. position at the University of the Cote d'Azur, in collaboration with the University of Antwerp. This position offers an exciting opportunity to develop reinforcement learning tools for the analysis of small molecule mass spectrometry data. As a Ph.D. candidate, you will work closely with renowned experts in analytical chemistry, machine learning, and bioinformatics. To apply, send an email to Prof. Dr. Louis-Felix Nothias (louisfelix.nothias(a)gmail.com<mailto:louisfelix.nothias@gmail.com>) and Prof. Dr. Wout Bittremieux (wout.bittremieux(a)uantwerpen.be<mailto:wout.bittremieux@uantwerpen.be>) by June 8, 2023 including a motivation letter, outlining your passion for artificial intelligence and molecular discovery, along with your CV highlighting your academic achievements and relevant experiences. 2. Postdoc in Molecular Artificial Intelligence: We have an exciting postdoctoral opportunity at the University of Antwerp. You will collaborate with world-leading pharmaceutical companies to develop artificial intelligence solutions to analyze billion-scale mass spectrometry-based metabolomics data and study the role of small molecules as fundamental building blocks of life. The application deadline for this position is June 15, 2023. We especially encourage candidates with a PhD in quantitative sciences and a strong interest in applying their data science skills to relevant life science challenges to apply. For more detailed information and to apply, please visit our website at: https://www.uantwerpen.be/en/jobs/vacancies/academic-staff/?q=2878&descr=Po…. We strongly encourage passionate individuals with a keen interest in Artificial Intelligence and Bioinformatics to apply for these positions. The University of Antwerp and the University of the Cote d'Azur offer vibrant research environments, state-of-the-art facilities, and a supportive community of scholars dedicated to pushing the boundaries of knowledge. Please feel free to share this information with anyone who may be interested or qualified. We appreciate your assistance in helping us spread the word and attract exceptional candidates to join our teams. Sincerely, Wout Bittremieux Assistant Research Professor University of Antwerp

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Senior bioinformatician position at the Pirbright Institute - UK
by BeNeLux bioinformaticians forum 01 Jun '23

01 Jun '23

The bioinformatics core facility at the Pirbright Institute is advertising for a permanent senior bioinformatician position. The post is primarily for the analysis of sequencing data and has a balance of service (~50%), room to pursue open ended projects with the two computational groups in the Institute (25%) and participation to bought-in time research projects (25%). The Institute has exceptional containment facilities producing unique datasets. Further details at: https://www.jobs.ac.uk/job/DAC810/23p-53-bioinformatician-senior-bioinforma… Informal enquiries can be addressed to bioinformatics(a)pirbright.ac.uk

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Postdoc Position at Schneeberger Group LMU Munich
by BeNeLux bioinformaticians forum 30 May '23

30 May '23

Dear all, The "Genome Plasticity and Computational Genetics" group led by Korbinian Schneeberger is looking for a postdoc to strengthen the team at LMU Munich: - https://job-portal.lmu.de/jobposting/0acd50c2ee814e23e6bb349698187f271d820e… - https://www.nature.com/naturecareers/job/12799906/postdoctoral-position-in-… Feel free to spread the word among those in your network who may be interested! Kind regards, Raúl Wijfjes AG Schneeberger, LMU Munich

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Two PhD/Postdoc research positions at Delft University of Technology
by BeNeLux bioinformaticians forum 27 May '23

27 May '23

Dear all, I have two openings for the following research positions, both with application deadline of 18 June 2023 (ongoing selection): * PhD or Postdoc on multimodal machine learning for molecular maps of human tissue in health & disease. Some topics of interest include (spatial) (single-cell) multi-omics integration, multimodal signature learning, cross-modality prediction, interpretability and explainability of multimodal ML, and more. The position involves close collaboration with multiple pathology and experimental labs in the US, with extensive expertise on spatial omics technologies (e.g. imaging mass spectrometry, sequence-based spatial transcriptomics), providing you with insight into the latest technologies. The position further interfaces with the large-scale consortia, including the Human BioMolecular Atlas Program (https://hubmapconsortium.org/) Kidney Predicion Medicine Project (https://www.kpmp.org/) and a Brain/Aging consortium). Read more and apply at https://www.academictransfer.com/en/328385/phd-or-postdoc-multimodal-machin…. * PhD on computational methods to uncover genetic diversity in complex disease from data acquired for large-scale cell "villages" of human donors coupled with single-cell molecular profiling. The position fits within a larger consortium, the iCELL Convergence Flagship, which I am co-leading (https://convergence.nl/flagship-convergence-in-a-dish/) The research of this particular position requires close collaboration with experts in molecular biology, stem cell research, and genetics at the Erasmus Medical Center in Rotterdam, Netherlands. Read more and apply at https://www.academictransfer.com/en/328386/phd-position-on-icell-individual…. Both positions are full-time and based in the beautiful city of Delft, in the Netherlands. Check out our Computational Molecular Biomedicine lab (https://goncalveslab.tudelft.nl/people.html) at the Delft University of Technology. We are part of the Pattern Recognition and Bioinformatics section, offering an inspiring research environment in data science and machine learning. Do not hesitate to get in touch in case you would like more information! -- Joana Gonçalves Assistant Professor TU Delft | EEMCS Faculty | Computer Science INSY Department | Pattern Recognition & Bioinformatics Meet (Zoom): https://tudelft.zoom.us/my/joanagoncalves Web: https://goncalveslab.tudelft.nl

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Upcoming BioSB courses
by BeNeLux bioinformaticians forum 26 May '23

26 May '23

Dear colleagues, Please note these upcoming, very interesting BioSB courses. Register in time and be welcome! Algorithms for Biomolecular Networks 26 - 30 June, Wageningen In this course, we will first give a brief overview of molecular biology, the advent of high-throughput measurement techniques and large databases containing biological knowledge, and the importance of networks to model all this. Next, we will discuss variing network models Building on the network inference methods, a number of ways of integrating various data sources and databases to refine biological networks will be discussed. The course is aimed at PhD students with a background in bioinformatics, computer science or a related field; a working knowledge of basic statistics and linear algebra is assumed. **************************************************** More information about the course can be found here<https://www.dtls.nl/courses/algorithms-for-biomolecular-networks/> Registration can be done here<https://www.aanmelder.nl/algorithms-biomolecular-networks/subscribe> **************************************************** Algorithms for Genomics 9- 13 October, Wageningen NOTE: deadline early bird rate = 14 August 2023 In this course, we will cover genome analysis, variant analysis, and pangenomics. Core concepts, applications, and future trends will be discussed, with a focus on the algorithms and data structures underlying state-of-the-art methods. The course is aimed at PhD students with a background in bioinformatics, computer science or a related field. Participants are expected to have experience in command-line usage (Unix shell) and programming (Python), and have basic knowledge of genomics. **************************************************** More information about the course can be found here<https://www.dtls.nl/courses/algorithms-for-genomics/> Registration can be done here<https://www.aanmelder.nl/algorithms_for_genomics/subscribe> **************************************************** Integrated Modeling and optimization 11- 15 December, Wageningen NOTE: deadline early bird rate = 16 October 2023 Only measurements cannot provide the answer to unravelling biological complexity. This is because the dynamical behavior of complex systems cannot be reduced to the linear sum of the functions of their parts. Given the huge complexity of biological systems, it is necessary to carefully understand the specific modelling requirements they pose, in order to define what a good model should look like. In this course we offer the participants the possibility to learn and exercise the modeling process. The course is aimed at PhD students with a background in bioinformatics, systems biology, computer science or a related field, and life sciences. Participants from the private sector are also welcome. A working knowledge of mathematics, especially differential equations, is recommendable, but we will distribute preparation material to be studied by students missing the required background. Furthermore, at the start we offer a math refresher to help those participants who are not (yet) involved in modelling on a daily basis. **************************************************** More information about the course can be found here<https://www.dtls.nl/courses/integrated-modeling-and-optimization-fundamenta…> Registration can be done here<https://www.aanmelder.nl/algorithms-biomolecular-networks/subscribe> **************************************************** We hope to welcome you to one of our courses! Kind regards, Petra Aarnoutse, Community manager BioSB research school [https://www.dtls.nl/wp-content/uploads/2021/08/BioSB_logo_full_250x226.png] Supported by [cid:part1.agd20taj.BNf9VxMv@health-RI.nl]

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Job Offer Dissemination
by BeNeLux bioinformaticians forum 26 May '23

26 May '23

Good morning, I share with you the link of our newest offer, hoping you can share it with your contact list. The offer is: Research Engineer - Computational Biology Group (RE2): https://www.bsc.es/join-us/job-opportunities/23923lscbre2 Feel free to contact us if you have any doubt about it Thank you very much, -- Albert Peiró Manrique /Human Resources / Management *Barcelona Supercomputing Center – Centro Nacional de Supercomputación* albert.peiro(a)bsc.es www.bsc.es <http://www.bsc.es/>

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