From Fredrik.Ronquist at nrm.se Thu Dec 1 09:33:52 2022 From: Fredrik.Ronquist at nrm.se (Fredrik Ronquist) Date: Thu, 1 Dec 2022 08:33:52 +0000 Subject: [SocBiN] Biodiversity data systems developer Message-ID: <2D045C05-A3FF-48B1-B2E9-83A9213371F1@nrm.se> Biodiversity data systems developer The Swedish Museum of Natural History (NRM) is looking to fill a position as systems developer in the national research infrastructure SBDI (Swedish Biodiversity Data Infrastructure; see https://biodiversitydata.se). You will be working within a team of systems developers and bioinformaticians at NRM supporting data-driven research in biodiversity. The team is backed by the SBDI consortium of 11 universities and government agencies in Sweden, the Swedish Research Council, DDLS (the Data-Driven Life Science initiative from the Knut and Alice Wallenberg Foundation; see https://www.scilifelab.se/data-driven/) and SciLifeLab. The NRM team is working in close collaboration with the Living Atlases Community (see https://living-atlases.gbif.org/), an international open-source community focused on developing and maintaining the underlying biodiversity data platform used by Sweden and many other countries around the world. The Swedish instance of the platform is currently run using Docker and OpenStack on cloud services provided by SUNET, but the platform will be moved in the near future to similar services provided by SNIC and its successor NAISS. Going forward, the work will be tightly integrated with the SciLifeLab Data Centre, and form part of the Data Science Node in Evolution and Biodiversity supported by DDLS. Deadline for application is December 13. More information about the position and application instructions can be found here: https://www.nrm.se/en/ommuseet/jobbahososs/ledigatjanster.9005019.html Direct questions about the position to Margret Steinthorsdottir, Director of SBDI (margret.steinthorsdottir at nrm.se). Fredrik Ronquist Professor, Dept Bioinformatics and Genetics Swedish Museum of Natural History -------------- next part -------------- An HTML attachment was scrubbed... URL: From ingemar.andre at biochemistry.lu.se Mon Dec 5 17:37:42 2022 From: ingemar.andre at biochemistry.lu.se (=?utf-8?B?SW5nZW1hciBBbmRyw6k=?=) Date: Mon, 5 Dec 2022 16:37:42 +0000 Subject: [SocBiN] Postdoctoral position in machine learning applied to protein folding and codon usage Message-ID: Dear all, The lab of Ingemar André is looking for a talented postdoctoral researcher in bioinformatics and machine learning at Lund University. The candidate is expected to develop computational methods to understand the relationship between codon usage and protein folding by developing machine learning data to analyze experimental and protein structure data. For more information, visit https://jobrxiv.org/job/lund-university-27778-postdoctoral-position-in-machine-learning-applied-to-protein-folding-and-co/ and/or andrelab.biochemistry.lu.se. Best wishes, Ingemar Ingemar André Biochemistry & Structural Biology Lund University PO Box 124 221 00 Lund tel: +46 46 222 4470 email: ingemar.andre at biochemistry.lu.se -------------- next part -------------- An HTML attachment was scrubbed... URL: From henrik.lantz at nbis.se Thu Dec 8 12:39:16 2022 From: henrik.lantz at nbis.se (Henrik Lantz) Date: Thu, 8 Dec 2022 12:39:16 +0100 Subject: [SocBiN] Application expert at AIDA Data Hub Message-ID: Dear all, see below for information about a position as application expert at the AIDA Data Hub in LInköping, Sweden. /Henrik ----------------------- Position: Application Expert in Medical Imaging Diagnostics AI at AIDA Data Hub AIDA Data Hub (part of NBIS) is seeking application experts in medical imaging diagnostics AI, who will establish a new function for advanced support and training at the AIDA Data Hub, directed towards researchers in the AIDA community. The Analytic Imaging Diagnostics Arena (AIDA) facilitates collaboration between national stakeholders in medical imaging diagnostics AI, to accelerate development and use of world leading AI tools. This requires advanced analyses and training of AI algorithms based on massive amounts of medical images and clinical data. The AIDA Data Hub provides services in data sharing, secure data processing, and policy support to the AIDA arena. The AIDA Data Hub is now planning to extend its service portfolio with application expertise in medical imaging diagnostics AI, to provide advanced support and training to researchers in the AIDA community. The primary focus is on projects with a clear connection to the broader SciLifeLab and DDLS aims, including precision medicine and multi-omics. In operation and continuous development of the new support function, the application expert will work integrated in national research and innovation projects, and take on research and AI development tasks. This will often entail working with sensitive personal medical imaging data on privacy-preserving data platforms. This will require addressing challenges of many types, primarily technical, but also legal questions and integrity considerations. This, in turn, will require close collaboration with national and international sensitive data service development teams. Application deadline: 2023-01-09 See here for more information and how to apply: https://datahub.aida.scilifelab.se/jobs/2023-01-09-application-expert/ From bartoszekkj at gmail.com Mon Dec 12 15:10:22 2022 From: bartoszekkj at gmail.com (Krzysztof Bartoszek) Date: Mon, 12 Dec 2022 15:10:22 +0100 Subject: [SocBiN] Fwd: Stochastic differential equations with R school at Linkoping University, Sweden In-Reply-To: References: Message-ID: At the Division of Statistics and Machine Learning, Department of Computer and Information Science, Linköping University, 21st-24th March 2023 we will be hosting a school concerning stochastic differential equations and the YUIMA R package (Simulation and Inference for SDEs and Other Stochastic Processes, https://cran.r-project.org/web/packages/yuima/index.html ) . The lectures will be given by members of the YUIMA team. Below is a nearly final program of the school. The dates are fixed. A similar event took place in summer 2019: https://yuimaproject.com/yss2019/ Please feel free to spread information about the school around. If anyone would be interested in coming, they should e-mail me directly. The registration deadline is 28th February 2023. However, we might end registration early if the amount of interested participats exceeds our capacity. Students who choose to take the school as a course, can obtain 3credits for it. Examination will be through a hand-in assignment. Please let me know if you would be interested in this option. Tentative program, can be subject to change but dates 21 March-24 March fixed We assume the participants are familiar with R. Laboratory means that this session will contain short exercises (ca 15min) to be done by the participants on their own laptops. The YUIMA Conference sessions will be more advanced research oriented talks, everyone is welcome to attend. DAY 1 (Mar 21) 10:45-11:30 Introduction to stochastic calculus I (stochastic processes, Brownian motion, labo with R) 13:00-14:15 Introduction to stochastic calculus II (stochastic integral and SDE, labo with R) 14:25-14:50 What can we do with YUIMA? 15:00-16:00 Linkoping Statistics Seminar + YUIMA Conference DAY 2 (Mar 22) 09:00-10:15 Simulation of diffusion processes I (Euler-Maruyama approximation and introduction to YUIMA: yuima object, simulation, plot, Black-Scholes model, labo) 10:30-11:30 Simulation of diffusion processes II (simulation of various models for illustrations) 13:00-14:00 Laboratory (simulation with YUIMA) 14:15-15:30 Poisson process and Compound Poisson processes (introduction, simulation, laboratorory) 15:50-16:50 YUIMA Conference DAY 3 (Mar 23) 09:00-10:15 Inference for diffusion processes I (QMLE) 10:30-11:30 Inference for diffusion processes II (quasi-Bayes estimation) 13:00-14:45 Model selection for diffusion processes 15:00-16:00 YUIMA GUI 16:10-17:10 YUIMA Conference DAY 4 (Mar 24) 09:00-10:00 Levy processes and Levy driven SDE I (theoretical background and some examples) 10:30-11:30 Levy processes and Levy driven SDE II (simulation in YUIMA) 13:00-16:00 YUIMA Conference Best wishes Krzysztof Bartoszek, PhD Docent, Senior Lecturer in Statistics Division of Statistics and Machine Learning Department of Computer and Information Science Linköping University krzysztof.bartoszek at liu.se From arne at bioinfo.se Thu Dec 15 19:11:37 2022 From: arne at bioinfo.se (Arne Elofsson) Date: Thu, 15 Dec 2022 19:11:37 +0100 Subject: [SocBiN] Fwd: 20 open permanent staff positions for the new Data platform and Data Science Nodes (DSNs) In-Reply-To: <536510A290E343DBB187CAF6298A6161@scilifelab.se> References: <536510A290E343DBB187CAF6298A6161@scilifelab.se> Message-ID: If you can't read this mail, click here. *20 open permanent staff positions for the new Data platform and Data Science Nodes (DSNs) * *One of the main objectives of the SciLifeLab and Wallenberg National Program for Data-Driven Life Science (DDLS), is to train and recruit the next generation of data-driven life scientists and by doing so, create strong and globally competitive computational and data science capabilities in Swedish life science. Furthermore, advanced technical staff will be essential and a central part of the program.* In order to fulfill this vision, the DDLS is now expanding its national bioinformatics and data infrastructures with more than 20 permanent staff members to support Swedish scientists performing data-driven research. These positions will help establish four new national Data Science Nodes across Sweden, each one primarily focusing on one of the four strategic research areas within the program (Cell and molecular biology, Precision medicine and diagnostics, Evolution and biodiversity, Epidemiology and biology of infections). The Data Science Nodes will be located in connection to strong local research environments at leading Swedish universities, with the staff still fully integrated with SciLifeLab’s unique national teams at the Bioinformatics platform (NBIS) and the SciLifeLab Data Centre. If you are (or know someone who are) a system developer, Data engineer, Data steward, AI and Machine Learning expert, or a Bioinformatics expert in fields, including (but not limited to) clinical molecular profiling and diagnostics, single-cell and spatial omics, evolution, environmental omics, immunology and host-interaction systems, and structural bioinformatics, don’t miss this opportunity and join our emerging Data Science Nodes and play a key role in data-driven life science! For more information and links to each individual position, please visit our recruitment website . *Science for Life Laboratory * Website | Subscribe | Unsubscribe Follow us: -------------- next part -------------- An HTML attachment was scrubbed... URL: From arne.elofsson at gmail.com Mon Dec 19 15:37:59 2022 From: arne.elofsson at gmail.com (Arne Elofsson) Date: Mon, 19 Dec 2022 15:37:59 +0100 Subject: [SocBiN] Stockholm: Assistant Professor in Integrative structural biology with focus on structural dynamics Message-ID: https://www.su.se/english/about-the-university/work-at-su/available-jobs?rmpage=job&rmjob=19334&rmlang=UK Deadline Dec 28 Assistant Professor in Integrative structural biology with focus on structural dynamics Stockholm Ref. No. SU FV-3836-22 *at the Department of Biochemistry and Biophysics . Closing date: 28 December 2022.* Stockholm University is a leading European university and one of the world’s top 100 institutes for higher education and research. Stockholm University has more than 60,000 students and 5,000 staff. The Science for Life Laboratory (SciLifeLab) is a national center for large-scale biosciences with a focus on health and environmental research and is a collaboration between Stockholm University, Karolinska Institutet, the Royal Institute of Technology, and Uppsala University. The position as assistant professor (tenure-track) in Integrative structural biology with focus on structural dynamics is within the SciLifeLab Fellows program, a career program aiming at strengthening Swedish research in Molecular Biosciences. SciLifeLab activities in Stockholm are located at a dedicated campus, Campus Solna, and the SciLifeLab fellow will be located at Campus Solna. The position comes with generous financial support for recruiting co-workers and for sustaining research activities during the six years as assistant professor. The advertised Assistant Professorship in integrative structural biology with focus on structural dynamics is at the Department of Biochemistry and Biophysics (DBB) at Stockholm University. DBB currently consists of around 30 independent research groups, most of which are located at the Arrhenius Laboratories at the Stockholm University campus. A number of groups from DBB are also located at SciLifeLab-Stockholm, where the current position will be housed. The primary responsibility of the Assistant Professor is to carry out research, together with limited teaching responsibilities at DBB. *Subject* Integrative structural biology with focus on structural dynamics *Subject description* The subject covers research in the area of structural biology, biophysics, biochemistry or computational biology. Studies of protein dynamics of macromolecular complexes by several experimental methods are central to the subject. *Main responsibilities* Research and in addition some teaching and supervision. *Qualification requirements* In order to qualify for the position as assistant professor, the applicant must have completed a doctoral degree in Sweden or an equivalent degree from another country. In the first instance, an applicant should be considered who has received such a degree no more than five years before the deadline for applications. However, an applicant who has received such a degree earlier may be considered under special circumstances. All teaching positions at Stockholm University require the ability to collaborate and the general ability and suitability to perform one’s duties. *Assessment criteria* In the appointment process, special attention will be given to research skills. Teaching skills will also be considered. The assessment of research skills will focus primarily on merits within the subject area of the position. *Additional information* For this position, the assistant professor is employed until further notice, but no longer than six years. The contract may be extended to a maximum of eight years under special circumstances, such as due to sick leave or parental leave. An assistant professor may, on application, be promoted to a permanent position as associate professor. Specific criteria for promotion from assistant professor to associate professor have been established by the Faculty of Science . An application for promotion to associate professor should be submitted to the faculty at least nine months Female applicants are particularly welcome, as most teachers at the department are men. This position (in Swedish, “biträdande lektor”) is a tenure track position, and the qualification requirements and terms of employment are regulated by the Higher Education Ordinance (SFS 2017:844). During the first six years of employment, the main workplace for the successful candidate will be SciLifeLab, Campus Solna. Stockholm University strives to be a workplace free from discrimination and with equal opportunities for all. *Contact* Further information about the position can be obtained from the Head of the Department, Professor Martin Högbom, telephone: +46 8 16 21 10, martin.hogbom at dbb.su.se. For questions regarding the application process, please contact administrator Mikael Stenberg, telephone: +46 8 16 20 86, mikael.stenberg at su.se. *Union representatives* Ingrid Lander (Saco-S), telephone: +46 708 16 26 64, saco at saco.su.se, Alejandra Pizarro Carrasco (Fackförbundet ST/Lärarförbundet), telephone: +46 8 16 34 89, alejandra at st.su.se, and seko at seko.su.se (SEKO). *Application* Apply for the position at Stockholm University's recruitment system. It is the responsibility of the applicant to ensure that the application is complete in accordance with the instructions in the job advertisement, and that it is submitted before the deadline. We would appreciate it if your application is written in English. Since it will be examined by international experts, English is the working language. The University’s rules of employment and instructions for applicants are available at: How to apply for a position . *You are welcome to apply! * Stockholm University contributes to the development of sustainable democratic society through knowledge, enlightenment and the pursuit of truth. *Closing date:* 28/12/2022 URL to this page https://www.su.se/english/about-the-university/work-at-su/available-jobs?rmpage=job&rmjob=19334&rmlang=UK Yours Arne ----------------------------------------- Arne Elofsson Science for Life Laboratory Tel:+46-(0)70 695 1045 Stockholm University http://bioinfo.se/ Box 1031, Email: arne at bioinfo.se 17121 Solna, Sweden Twitter: @arneelof Mastodon: @arneelof at fediscience.org Zoom: https://stockholmuniversity.zoom.us/my/arneelof/ Scholar: http://scholar.google.se/citations?user=s3OCM3AAAAAJ ORCID: 0000-0002-7115-9751 -------------- next part -------------- An HTML attachment was scrubbed... URL: From arne.elofsson at gmail.com Wed Dec 21 20:18:21 2022 From: arne.elofsson at gmail.com (Arne Elofsson) Date: Wed, 21 Dec 2022 20:18:21 +0100 Subject: [SocBiN] Position in Uppsalas Message-ID: Assistant Professor in Machine Learning, with specialisation in applications in life sciences https://www.uu.se/en/about-uu/join-us/details/?positionId=556674 -------------- next part -------------- An HTML attachment was scrubbed... URL: From bram.berntzen at helsinki.fi Thu Dec 22 14:32:10 2022 From: bram.berntzen at helsinki.fi (Berntzen, Bram J) Date: Thu, 22 Dec 2022 13:32:10 +0000 Subject: [SocBiN] Four openings for doctoral researchers at the University of Helsinki (FIMM-EMBL/DSHealth) Message-ID: Hello, As part of the Nordic EMBL Partnership for Molecular Medicine, FIMM in collaboration with DSHealth is seeking 4 outstanding candidates for positions of Doctoral Researchers in Molecular Medicine and Life Sciences starting in August 2023. The call is open from 2 January until 5 February. Please find more information attached to this e-mail and on our webpage. Could you please share this with your network? See below a short announcement of the call: In collaboration with the Nordic EMBL Partnership in Molecular Medicine and Doctoral School in Health Sciences (DSHealth), FIMM announces the opening of the 2023 call for applications for Doctoral Researchers in Molecular Medicine and Life Sciences as part of the FIMM-EMBL/DSHealth International PhD recruitment and training program. In this interdisciplinary program, four outstanding doctoral researchers are recruited to the institute-level rotation program where they will work with two to three different research groups during a six-to-nine-month period prior to matching to a research group in which they remain for their doctoral studies. The program provides an exciting opportunity to explore and combine different research areas and working environments as well as to learn a variety of science and technologies, making connections within and beyond the institute. The deadline for applications is 5 February 2023, and application instructions are available within the detailed call announcement. Questions are welcome to FIMM’s Doctoral Training Coordinator, Bram Berntzen (bram.berntzen at helsinki.fi) Best wishes, Bram J Berntzen, PhD Postdoctoral Researcher in Genetic Epidemiology Doctoral Training Coordinator LinkedIn ORCID -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: FIMM-EMBL-DSHEALTH Doctoral Researcher Call 2023.pdf Type: application/pdf Size: 288564 bytes Desc: FIMM-EMBL-DSHEALTH Doctoral Researcher Call 2023.pdf URL: