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UID:10001278-1724760000-1727784000@www.scilifelab.se
SUMMARY:Data-Driven Life Sciences Course 2024 (Online)
DESCRIPTION:Welcome to the Data-driven Life Sciences 2024 course\, where you will explore the intersection of data science\, artificial intelligence\, and life sciences to drive innovation and discovery. This fully online course culminates in an in-person hackathon\, fostering a vibrant community that gathers the DDLS and SciLifeLab members. \n\n\n\nThe 6 modules aim to introduce learners to computer-driven life sciences\, covering application areas in data-driven life sciences. Guest lecturers (DDLS Fellows\, SciLifeLab fellows\, and SciLifeLab facility training providers) will teach topics including technologies and analysis of data sets from proteomics\, transcriptomics\, biomolecular structure\, molecular dynamics simulations\, and various imaging techniques. These modules present\, analyze\, and discuss models of biological phenomena and related scientific breakthroughs based on such data analysis. \n\n\n\nRegistration\n\n\n\nAs prerequisites for the course\, we recommend that you have a look at the following resources: \n\n\n\n\nPlease have a look at the SciLifeLab Data-Driven Life Science (DDLS) initiative website to understand what data-driven life sciences are\, and how Sweden is investing in this area. Focus in particular on the concept of the data life cycle\, which is central in this class.\n\n\n\nWe will use Python as the main programming language in the computer lab\, so please make sure you know the basics of Python. \n\n\n\n\nFor the computer lab\, you will need a computer with internet access\, and make sure you have the following set up: \n\n\n\n\nInstall the latest browser\, e.g. Chrome\n\n\n\nRegister a Google account for the Google Colab access and use the Google Drive\n\n\n\nRegister a ChatGPT account (Note: No need to subscribe to the paid version of ChatGPT\, using the free version is sufficient for this course)\n\n\n\nRegister a Github account for versioning of the code\n\n\n\n\nLearning objectives:  \n\n\n\n\nDescribe the field of data-driven life sciences\n\n\n\nPresent an overview of various application areas\n\n\n\nProvide examples of applications and their associated analysis methods\n\n\n\nApply statistical and machine learning analysis to biological data sets\n\n\n\nFormulate models of biological phenomena\n\n\n\nPresent and review scientific literature in computer-driven life sciences\n\n\n\nReflect on the ethical consequences of data-driven life sciences\n\n\n\nPractice good data management\, including collection\, handling\, sharing\, and analysis\n\n\n\n\nFor questions\, contact the course leader Wei Ouyang at weio@kth.se
URL:https://www.scilifelab.se/event/data-driven-life-sciences-course-2024-online/
LOCATION:Online event via Zoom
CATEGORIES:Course
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20240924T120000
DTEND;TZID=Europe/Stockholm:20240925T120000
DTSTAMP:20260501T195442
CREATED:20240507T151251Z
LAST-MODIFIED:20240925T061816Z
UID:10001257-1727179200-1727265600@www.scilifelab.se
SUMMARY:The Disruptive Role of Data and AI in the Life Sciences
DESCRIPTION:A Joint Conference between DDLS\, WASP and WASP-HS\n\n\n\n\n\nThe conference will focus on different aspects of research where collaboration over scientific domains is essential and will explore the following topics: \n\n\n\n\nHow data- and AI-driven research is shaping the future of life science\n\n\n\nDevelopment of new approaches to human-in-the-loop technologies and their use\n\n\n\nThe need for studies at the intersection of society\, AI\, and data driven life sciences\n\n\n\n\n\n\n\n\nParticipants will have the opportunity to network\, be inspired by excellent international keynotes\, and take part of the latest research in Sweden. In addition to plenary keynotes\, the program will offer parallel sessions\, panel discussions\, mingle and poster sessions. \n\n\n\nPractical Details\n\n\n\nDates and times  \n\n\n\nSeptember 24\, 12:00 – September 25\, 12:30Registration is open from 11:00 on September 24. \n\n\n\nVenue: Wallenberg Conference Center\, Medicinaregatan 20 A\, Gothenburg \n\n\n\nInformation for registered poster \n\n\n\n• size of poster 90x 120 cm portrait format• posters can be hung on the 24th of September from 11:00 and should be done by 12:00• poster should be removed after the end of the conference on the 25th. You are responsible for your poster. Forgotten posters will not be saved.During the poster session 17:15-19 on the 24th of September we would appreciate if you are available by your poster for discussions and questions. During the Magnet mingle on the 25th you are also welcome to be by your poster. \n\n\n\nRegistration to the Conference\n\n\n\nRegister here \n\n\n\nThe registration is open until September 6. \n\n\n\nContact: ddls@scilifelab.se or info@wasp-sweden.org \n\n\n\nProgram\n\n\n\n24 September\n\n\n\n11:00 Registration opensPosters are to be hung up from 11:00 and should be done by 12:00. \n\n\n\n12:00 – 13:00 Lunch \n\n\n\nStart of conference \n\n\n\n13:00 – 13:15 Opening Program DirectorsChristofer Edling\, WASP-HSOlli Kallioniemi\, DDLSAnders Ynnerman\, WASPChair\, Rebecka Jörnsten WASP \n\n\n\n13:15-14:00 Keynote speaker Sunduz KelesIntegrative Approaches to Single-Cell Genomics for Personalized MedicineChair\, Rebecka Jörnsten WASP \n\n\n\n14:05- 14:50 Keynote speaker Ross KingThe Automation of ScienceChair\, Rebecka Jörnsten WASP \n\n\n\n14:50-15:20 Coffee \n\n\n\n15:20-16:20 Project presentation WASP DDLS (4 *15 min)Christopher Sprague\, Incorporating Stability Into Flow MatchingBjörn Wallner\, Improved protein structure prediction by adding noise at  inferenceHedvig Kjällström\, Unraveling the secrets of nature’s high-performance fiberAlexander Schliep and Pär Mattsson Molecular simulation and machine learning to delineate target binding of therapeutic oligonucleotidesChair\, Päivi Östling \n\n\n\n16:20-17:05 Project presentation WASP-HS DDLS (3* 15 min)Harald Hammarström\, Linguistic Diversity Through the Prism of BiodiversityStanley Greenstein\, AI in the Health Care Sector – Legal ChallengesSonja Aits\, Mapping the Nexus of Biodiversity\, Climate Change\, Human Society and Health using Large Language Models and other Data Science ApproachesChair\, Stefan Larsson \n\n\n\n17:15: – 19:00 Finger food and poster session \n\n\n\n25 September\n\n\n\n08:30-9:30 Project presentation WASP DDLS (4*15 min)Ingrid Hotz\, Tino Ebbers\, Characterization and visualization of cardiac spectral imaging dataSebastian Westenhoff\, cryoSPHERE: Single-particle heterogeneousreconstruction from cryo EMAndreas Kerren\, Visual Analytics for Enhancing Quality and Trust in Genome-wide Expression Clustering and AnnotationMinh Hoang Vu\, Anonymization of Data in Precision Medicine ResearchChair\, Olli Kallioniemi \n\n\n\n09:30-10:45 Magnet mingle including coffeeChair\, Rebecka Jörnsten and Christofer Edling \n\n\n\n10:45-11:30 Keynote Speaker: Klaus HøyerAll the data from everywhere all at once: data integration\, AI imaginaries\, and their unpredictable outcomesChair\, Christofer Edling \n\n\n\n11:30-12:15 Panel on common research challengesSunduz Keles\, Ross King\, Klaus Hoyer\, Andreas Kerren\, Tino EbbersModerators\, Rebecka Jörnsten and Stefan Larsson \n\n\n\n12:15 Closing remarks\, Program DirectorsChristofer Edling\, WASP-HSOlli Kallioniemi\, DDLSRebecka Jörnsten WASP \n\n\n\n12:30 Lunch to go \n\n\n\nKeynote Speakers\n\n\n\nSunduz Keles\n\nTitle: Integrative Approaches to Single-Cell Genomics for Personalized MedicineBio: Dr. Keles obtained her Ph.D. in Biostatistics from the University of California at Berkeley. After a year-long postdoctoral appointment at UC Berkeley\, she joined the Department of Biostatistics and Medical Informatics and the Department of Statistics at the University of Wisconsin\, Madison. She has twenty years of experience in developing statistical and computational methods for genomics\, including serving as an ENCODE PI\, and pioneering foundational statistical models for leveraging multi-mapping reads in high throughput sequencing data analysis (ChIP-seq\, Hi-C). \n\n\nHer research interests span developing statistical and computational methods for denoising and signal extraction from sequencing data and modeling of high dimensional data. Her computational approaches led to fundamental contributions on how GATA factors mediate transcriptional regulation in HSPCs and erythroid cells. Dr. Keles is an elected fellow of the American Statistical Association. \n\n\n\n\n\nKlaus Lindgaard Høyer\nTitle: All the data from everywhere all at once: data integration\, AI imaginaries\, and their unpredictable outcomesBio: Klaus Hoeyer is professor of Medical Science and Technology Studies at the Centre for Medical Science and Technology Studies\, University of Copenhagen. His research focuses on the links between policy\, practice and experience in relations to medical research and clinical practice. In recent years\, he has focused mainly on what he calls intensified data sourcing in healthcare and how it interacts with and changes the health services. This research is primarily financed by the European Research Council. \n\n\n\n\nRoss D. King\nTitle: The automation of scienceBio: Ross D. King did his PhD on applying machine learning to predicting protein structure at the Turing Institute in Glasgow. He has joint positions at Chalmers Institute of Technology\, and the University of Cambridge. He is one of the most experienced machine learning researchers in Europe. \n\n\n\nHis main research interest is the interface between computer science and science. He originated the idea of a ‘Robot Scientist’: integrating AI and laboratory robotics to physically implement closed-loop scientific discovery. His Robot Scientist ‘Adam’ was the first machine to autonomously discover scientific knowledge. His Robot Scientist ‘Eve’ is currently searching for drugs against neglected tropical diseases\, and COVID.  His other core research interest is DNA computing. \n\n\n\n\nProject Presenters\n\n\n\nAlexander Schliep\nTitle: Molecular simulation and machine learning to delineate target binding of therapeutic oligonucleotides \n\n\n\nBio: Alexander Schliep is the chair for Medical Bioinformatics at the Faculty of Health Sciences Brandenburg at Brandenburg Technical University Cottbus-Senftenberg\, with a secondary appointment at the University of Gothenburg and member of the WASP (Wallenberg AI\, Autonomous Systems and Software Program) research collegium. \n\n\n\nHis current research program is focused on machine learning and algorithmics for analyses of genomic data and nucleic acid-based therapeutics\, including machine learning for pan-genome graph analyses\, efficient analysis algorithms for large genomic datasets\, and federated\, privacy-preserving methods for training ML/AI models for oligonucleotide therapeutics. \n\n\n\n\nAndreas Kerren\nTitle: Visual Analytics for Enhancing Quality and Trust in Genome-wide Expression Clustering and Annotation \n\n\n\nBio: Prof. Dr. Andreas Kerren received his PhD degree in Computer Science from Saarland University\, Saarbrücken\, Germany. In 2008\, he achieved his habilitation (docent competence) from Växjö University\, Sweden. \n\n\n\nDr. Kerren is currently a Full Professor of Information Visualization\, Linköping University (LiU) and Linnaeus University (LNU)\, Sweden. He holds the Chair of Information Visualization at LiU and is head of the research group Information and Software Visualization at LNU. In addition\, he is an ELLIIT professor supported by the Excellence Center at Linköping–Lund in Information Technology and key researcher of the Linnaeus University Centre for Data Intensive Sciences and Applications. \n\n\n\nHis main research interests include several areas of information visualization and visual analytics\, especially visual network analytics\, text visualization\, and the use of visual analytics for explainable AI. \n\n\n\nHe has been editorial board member of a number of journals such as Information Visualization or Computer Graphics Forum\, has served as organizer/program chair at numerous conferences such as IEEE VISSOFT 2013/2018 or GD 2018\, and has edited a number of successful books on human-centered visualization. Dr. Kerren has published more than 200 peer-reviewed papers\, articles\, and book chapters. \n\n\n\n\nBjörn Wallner\nTitle: Improved protein structure prediction by adding noise at inference \n\n\n\nBio: Björn Wallner has been a faculty member at Linköping University since 2011 and a Professor in Bioinformatics since 2019. He obtained his Ph.D. in Bioinformatics from Stockholm University in 2005 and did postdoctoral work at the University of Washington from 2006-2008. \n\n\n\nHis research interests include protein structure prediction\, protein-protein interactions\, protein function\, disorder\, flexibility\, and dynamics. \n\n\n\n\nChristopher Sprague\nTitle: Incorporating Stability Into Flow Matching \n\n\n\nBio: Christopher Iliffe Sprague is a postdoctoral researcher at KTH Royal Institute of Technology and SciLifeLab\, working with Arne Elofsson and Hossein Azizpour on deep learning approaches for protein-protein interactions. He earned his PhD in robotics from KTH\, where he focused on developing efficient and trustworthy AI for critical robotic systems. \n\n\n\nCurrently\, as a postdoc\, Christopher is leveraging his robotics expertise to enhance inductive biases in deep generative models\, particularly for equilibrium generation tasks like molecular docking. His research interests include flow-based generative models\, hybrid dynamical systems\, and drug design \n\n\n\n\nHarald Hammarström\nTitle: Linguistic Diversity Through the Prism of Biodiversity \n\n\n\nBio: Harald Hammarström is Professor of General Linguistics atUppsala University. He has a background in both Computer Science andLinguistics. \n\n\n\nHe has a very broad linguistic interest spanning allareas of the world but specializing in minority languages in Papua\,Africa and South America. His research activities span fromdocumentary fieldwork in Papua\, Indonesia\, classical linguisticanalytic work\, typological databases\, and NLP for lesser-knownlanguages. \n\n\n\nHe is currently focussing on large-scale empirical andcomputational approaches to linguistic diversity\, genealogical/arealrelationships and language universals. \n\n\n\n\nHedvig Kjellström \nTitel: Unraveling the secrets of nature’s high-performance fiber \n\n\n\nBio: Hedvig Kjellström is a Professor in the Division of Robotics\, Perception and Learning at KTH Royal Institute of Technology\, Sweden\, and also affiliated with Swedish University of Agricultural Sciences\, Swedish e-Science Research Centre\, and Max Planck Institute for Intelligent Systems\, Germany. She received an MSc in Engineering Physics and a PhD in Computer Science from KTH in 1997 and 2001\, respectively\, and thereafter worked at the Swedish Defence Research Agency\, before returning to a faculty position at KTH. Her present research focuses on methods for enabling artificial agents to interpret human and animal behavior. These ideas are applied in the study of human aesthetic bodily expressions such as in music and dance\, modeling and interpreting human communicative behavior\, and the understanding of animal behavior and experiences. In order to accomplish this\, methods are developed for agents to perceive the world and build representations of it through vision. \n\n\n\nHedvig has received several prizes for her research\, including the 2010 Koenderink Prize for fundamental contributions in computer vision. She has written around 150 papers in the fields of computer vision\, machine learning\, robotics\, information fusion\, cognitive science\, speech\, and human-computer interaction. She is mostly active within computer vision\, where she is an Editor-in-Chief for CVIU\, a Program Chair for CVPR 2025\, and regularly serves as Area Chair for the major conferences.  \n\n\n\n\nIngrid Hotz\nTitle: Characterization and visualization of cardiac spectral imaging data \n\n\n\nBio: Ingrid Hotz is a professor at Linköping University in Sweden\, leading the Scientific Visualization group in the Department of Science and Technology. She holds an M.S. in theoretical physics from Ludwig Maximilian University\, Munich\, and a Ph.D. in computer science from the University of Kaiserslautern. Hotz has held research positions at the Institute for Data Analysis and Visualization (IDAV) at UC Davis\, the Zuse Institute Berlin\, and the German Aerospace Center (DLR). Since 2015\, she has been a professor at Linköping University and was named the Dr. Ram Kumar IISc Distinguished Visiting Chair Professor at the Indian Institute of Science in 2022. \n\n\n\nHer research focuses on scientific visualization and topological data analysis\, aiming to develop advanced visual analysis tools for complex datasets across various fields\, including engineering\, physics\, chemistry\, and medicine. She integrates methods from computer science and mathematics\, such as computer graphics and computational topology\, with a participatory design approach to ensure practical and relevant solutions. \n\n\n\n\nMinh Hoang Vu\nTitle: Anonymization of Data in Precision Medicine Research \n\n\n\nBio: Minh Vu is a postdoctoral researcher at IceLab\, Umeå University\, working under the supervision of Martin Rosvall and Beatrice Melin. Their research focuses on anonymizing and visualizing biobank data to facilitate meaningful insights and discoveries in disease understanding and treatment development. \n\n\n\n\nPär Matsson\nTitle: Molecular simulation and machine learning to delineate target binding of therapeutic oligonucleotides \n\n\n\nBio: Pär Matsson is Professor of Pharmacokinetics at the Sahlgrenska Academy\, University of Gothenburg\, and Scientific Director of OligoNova Hub – the SciLifeLab infrastructure for development of therapeutic oligonucleotides. \n\n\n\nHis research is centered on elucidating the molecular mechanisms of cellular and subcellular drug disposition\, and how they influence therapeutic effect. A particular focus is on the cellular disposition and effects of non-traditional drug modalities\, including therapeutic oligonucleotides and targeted protein degraders (PROTACs). \n\n\n\n\nSonja Aits\nTitle: Mapping the Nexus of Biodiversity\, Climate Change\, Human Society and Health using Large Language Models and other Data Science Approaches \n\n\n\nBio: Sonja Aits leads the “Cell Death\, Lysosomes and Artificial Intelligence” group at the Faculty of Medicine\, Lund University\, which works at the intersection of data\, life and sustainability science. Her group develops computational tools such as large language models for scientific text mining and computer vision models for histology and high-content microscopy and uses them to identify biological pathways and disease mechanisms in humans and other species as well as intervention strategies that promote human health\, biodiversity and sustainability. \n\n\n\nSonja helps coordinate AI Lund\, Lund University’s umbrella organization for AI-related research\, outreach and education\, and the profile area “Nature-based future solutions”. In addition\, she serves as study director of the COMPUTE research school\, where she has developed the PhD course program “AI in Medicine and Life Science”. She is also deeply engaged in open education and public outreach. \n\n\n\n\nStanley Greenstein\nTitle: AI in the Health Care Sector – Legal Challenges \n\n\n\nBio: Stanley Greenstein (Jur. Dr.) is an Associate Professor (Docent) in Law and Information Technology\, Faculty of Law\, Stockholm University. He is Chairman of the Board\, Swedish Law and Informatics Research Institute (IRI\, https://irilaw.org/)\, Chairman of the Board\, Foundation for Legal Information (Stiftelsen för rättsinformation) and a Digital Futures faculty member (https://www.digitalfutures.kth.se/about/). \n\n\n\nStanley’s primary academic focus is cross-disciplinary in nature and addresses the regulation of emerging digital technologies\, especially artificial intelligence (AI). His teaching\, research and participation in externally funded projects has revolved around the subject areas of ethics\, data protection\, sustainability and legal design. \n\n\n\n\nTino Ebbers\nTitle: Characterization and visualization of cardiac spectral imaging data \n\n\n\nBio: Tino Ebbers is a professor of physiological measurements at Linköping University\, with a focus on cardiac imaging\, modeling\, and simulation. He holds an MSc in Electrical Engineering from the University of Twente and a PhD in Biomedical Engineering from Linköping University. After completing his PhD\, he worked at Philips Medical Systems before returning to academia. He also served as a visiting professor at the University of California\, San Francisco. \n\n\n\nWith over 100 publications in leading scientific journals and numerous contributions to international conferences\, Tino Ebbers has made a significant impact through his multidisciplinary approach to merging technical research with clinical applications. He is best known for pioneering 4D flow MRI\, a breakthrough technology now widely used to study cardiovascular blood flow in both research and clinical settings. His contributions have greatly advanced cardiovascular imaging and led to major innovations in the diagnosis\, treatment\, and management of cardiovascular diseases. \n\n\n\n\nBackground\n\n\n\nSince 2021 the Wallenberg AI\, Autonomous Systems and Software Program (WASP) and the SciLifeLab and Wallenberg National Program for Data-Driven Life Science (DDLS) are collaborating through joint research projects with the ultimate goal of solving ground-breaking research questions across disciplines. In line with this\, the programs will now host the first\, joint annual conference where common research topics are highlighted. Additionally\, the increasingly important humanity and societal aspects of the research will be addressed through participation of the WASP-HS program (Wallenberg AI\, Autonomous Systems and Software Program- Humanity and Society). Read more about the different research programs here: \n\n\n\nDDLS\n\n\n\nWASP\n\n\n\nWASP-HS \n\n\n\nOpen Calls\n\n\n\nThe conference is an opportunity to find collaborators for the two open calls: \n\n\n\nWASP-DDLS: NEST projects https://wasp-sweden.org/calls/call-for-joint-wasp-and-ddls-nests/  \n\n\n\nWASP-HS-DDLS: Research Initiation Grants for Data-Driven Life Sciences and Society https://wasp-hs.org/open-call-research-initiation-grants-for-data-driven-life-sciences-and-society/  \n\n\n\n \n\n\n\n \n\n\n\n\n\n\n\n \n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n \n\n\n\nRead more\n\n\n\nRead more\n\n\n\nRead more
URL:https://www.scilifelab.se/event/the-disruptive-role-of-data-and-ai-in-the-life-sciences/
LOCATION:Conference Centre Wallenberg\, Medicinaregatan 20A\, Gothenburg\, 413 90\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2024/05/DDLS_WASP_WP-1536x864-1.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241007T120000
DTEND;TZID=Europe/Stockholm:20241008T150000
DTSTAMP:20260501T195442
CREATED:20240620T093344Z
LAST-MODIFIED:20241003T140306Z
UID:10001284-1728302400-1728399600@www.scilifelab.se
SUMMARY:DDLS Symposium on Data-Driven Environmental Monitoring of Infectious Diseases
DESCRIPTION:The DDLS research area Epidemiology and Biology of Infection invites you to its second in-person symposium. (The event is fully in-person only). The symposium will focus on promoting and enhancing data-driven environmental assessment for infectious diseases (including antibiotic-resistant bacteria) across various settings using diverse approaches. \n\n\n\nThe symposium will feature both local and international high-profile speakers in the field and will cover topics ranging from sewage surveillance\, monitoring of airborne infectious agents\, as well as environmental and animal disease monitoring for pathogens\, antimicrobial resistance and harmful substances. The symposium will also include more technical aspects of implementations as well as data-driven advancements and challenges. \n\n\n\nThere will also be a possibility to submit abstracts for short talks! \n\n\n\nPlease join us for this one-and-a-half-day symposium on 7-8 October 2024\, in Navet\, SciLifeLab’s meeting place in Uppsala\, to meet the research area Fellows\, the Expert Group and excellent researchers of the area. Engage in discussions\, enjoy refreshments\, and network with experts across a range of infectious disease monitoring topics! \n\n\n\nWelcome! \n\n\n\nScientific committeeAnna Székely (SLU)Johan Bengtsson-Palme (Chalmers) \n\n\n\nRegistration\n\n\n\nDeadline for abstract submission: 23 September (Extended deadline)Deadline to register to attend: 25 September \n\n\n\nIf seats are available and you register after September 25\, we can not accommodate allergies or special requirements and you will write your name tag upon arrival to the venue.. \n\n\n\nRegistration\n\n\n\n\n\n\n\nProgram\n\n\n\nDDLS symposium EBI_PROGRAM_3Download\n\n\n\n\n\n\n\n\n\nMembers of The Data-driven Epidemiology and biology of infection expert group:\n\n\n\nTom Britton\, Stockholm UniversityJoakim Dillner\, Karolinska Institutet and Karolinska Univ. HospitalTove Fall\, Uppsala UniversityBirgitta Henriques-Normark\, Karolinska InstitutetErik Kristiansson\, Chalmers University of TechnologyPatrik Medstrand\, Lund UniversityStaffan Svärd\, Uppsala UniversityOliver Billker\, chair (DDLS SG member)
URL:https://www.scilifelab.se/event/ddls-symposium-on-data-driven-environmental-monitoring-of-infectious-diseases/
LOCATION:BMC Trippelrummet\, Husargatan 3\, entrance C11\, Uppsala\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2023/03/EBI_Icon.png
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241009T090000
DTEND;TZID=Europe/Stockholm:20241011T163000
DTSTAMP:20260501T195442
CREATED:20240909T104734Z
LAST-MODIFIED:20240910T082733Z
UID:10001350-1728464400-1728664200@www.scilifelab.se
SUMMARY:Data-Driven Life Sciences Hackathon
DESCRIPTION:Join us at the DDLS Hackathon in person at SciLifeLab in Solna\, where participants will choose and collaborate on a range of provided projects. With the support of teaching assistants in a hands-on environment\, groups will innovate and develop solutions in the dynamic field of data-driven life science. \n\n\n\nDuring the three day hackathon\, participants will select a dataset and apply the skills and knowledge gained during the course (see link above for each module) to create AI models\, analyze the data\, and produce meaningful insights. At the end of the hackathon\, teams will present their achievements. \n\n\n\nEveryone affiliated with the DDLS programme or interested in data-driven life science is welcome to join–from PIs\, PhD students\, postdocs\, and facility experts/trainers. Participants will form pairs or small groups of 2-3 people on-site to work on projects\, exchange ideas and experiences\, and engage in pair programming. This collaborative environment will foster innovation and provide a unique opportunity to apply the concepts learned throughout the course to real-world problems in data-driven life sciences.  \n\n\n\nWhat will you gain attending the hackathon?If you are to be selected to participate you will get the opportunity not only to work hands-on on a data-driven life science project\, but also to network with experts within the field of data-driven life science\, researchers and research infrastructure experts \n\n\n\nRegistration deadline:Monday\, September 30th\, 2024 \n\n\n\n \n\n\n\nRegistration\n\n\n\nThis hackathon is part of the 2024 DDLS course and will gather data-driven life science researchers (MSc students\, PhD students\, post-docs\, staff-scientists\, experts and group leaders). \n\n\n\n \n\n\n\nFor questions\, contact Wei Ouyang at weio@kth.se or traininghub@scilifelab.se
URL:https://www.scilifelab.se/event/data-driven-life-sciences-hackathon/
LOCATION:Gamma 7 Lunchroom\, Tomtebodavägen 23A\, Solna\, 17121
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241017T090000
DTEND;TZID=Europe/Stockholm:20241017T170000
DTSTAMP:20260501T195442
CREATED:20240314T102017Z
LAST-MODIFIED:20241011T115004Z
UID:10001207-1729155600-1729184400@www.scilifelab.se
SUMMARY:SciLifeLab Uppsala Site Day
DESCRIPTION:The SciLifeLab site in Uppsala welcomes you to a full day of vibrant and inspiring science. During this event\, SciLifeLab Uppsala will highlight the research and infrastructure located in Uppsala. \n\n\n\nExperience the wide variety of research infrastructures at SciLifeLab Uppsala. Listen to talks from SciLifeLab/DDLS fellows. Join the panel discussion with the nationwide capability programs in Planetary Biology\, Precision Medicine\, and Pandemic Laboratory Preparedness. Enjoy poster sessions and exhibitions from SciLifeLab facilities. \n\n\n\nThe SciLifeLab Uppsala Site Day aims to foster discussions and interaction among participants. The event will be held exclusively on-site in Sal X\, which has a seating capacity of 221 people\, and will be streamed to Sal IX\, which can accommodate 141 people. Since the seats are limited\, remember to cancel if you cannot attend. \n\n\n\nAll attendees are invited to enjoy fika\, lunch\, and mingling sessions. Please note that no Zoom link will be available. \n\n\n\nRegistration\n\n\n\nRegistration closes on October 14 at 09:00. \n\n\n\nRegistration\n\n\n\nIf you have questions\, please contact events@scilifelab.se \n\n\n\n\n\n\n\nProgram\n\n\n\nSciLifeLab Day Uppsala_Program_v4.0Download\n\n\n\n\n\n\n\nExhibition List\n\nU-Print\, 3D printing facility Paul O’Callaghan\n\n\n\nDanioReadout Beata Filipek-Gorniok\n\n\n\nNMR-UppsalaRuisheng Xiong\n\n\n\nMicrofluidicsMaria Tenje\n\n\n\nAffinity Proteomics UppsalaMikael Åberg\n\n\n\nGenomics PlatformSusanne Hellstedt Kerje\n\n\n\nBioImage Informatics Anna KlemmBioinformatics (NBIS/ELEXIR-SE)\,Bengt Persson\n\n\n\nChemical Biology Consortium Sweden Uppsala Jordi Carreras Puigvert\n\n\n\nClinical Genomics UppsalaMalin Melin\n\n\n\nDrug Discovery and Development Platform Rebecka Klintenberg\n\n\n\nSpatial Mass SpectrometryAnna Nilsson\n\n\n\nUppsala International HubCharlotte Walker\n\n\n\nTesta CenterAlexandra Patriksson\n\n\n\nSciLifeLab CapabilitiesPrecision Medicine Capability\, Eva Berglund. Pandemic Laboratory Preparedness Capability\, Alice Sollazzo. Planetary Biology Capability\, Anabella Aguilera\n\n\n\nEATRIS Ulrika BäckmanInnovation coaching Kerstin Ekelöf\, UU Innovation\, Liza Nilsson\, UU Innovation\n\n\n\nUppsala Clinical Research Center (UCR)\, Maria Sörby\n\n\n\nSciLifeLab Data Centre and Data Science Node in Evolution and Biodiversity\, Angela Fuentes Pardo\n\n\n\nSciLifeLab\, Training Hub\, Data-driven Life Science Program (DDLS) supported by KAW and SciLifeLab\, Hampus Pehrsson Ternström\n\n\n\n\n\nPosters and Flash Talks\nWe have reserved space for selected SciLifeLab/DDLS fellow PhD students\, eSSENCE PhD students to bring a scientific poster. Four submitted abstracts have been selected for a 5-minute Flash Talk. The selected Flash Talks are highlighted. \n\n\n\nInstructions \n\n\n\nMount your poster during the Coffee & Registration at 08:30-09:00\, poster presentation during the lunch mingle. \n\n\n\nThe poster screens are portrait oriented\, 103×143 cm. \n\n\n\nPoster #Poster title and presenter1Investigating Islet Vasculature Alterations in Type I DiabetesCasian-Simon Aioanei – FLASH TALK2Optimal effect estimation in genome-wide association studies with censored biomarker measurements in large-scale biobanksYaqi Deng – FLASH TALK3Loss of chromogranin A and catestatin affect islet composition and neurotransmitters in the pancreasDali Epremidze – FLASH TALK4Chemoselective Primer Extension for Sequencing in Fixed and Living CellsChengxiang Yuan5Unraveling the Alzheimer’s Puzzle: The Role of ApoE4\, Mitochondria\, and Lipid Metabolism in neuronal settingSona Hakhverdyan6Adaptive Robust Learning using Latent Bernoulli VariablesAleksandr Karakulev7Deep Learning with Big Data for Genetic EpidemiologyMax Kovalenko8Strained Cyclooctynes with Photocages for Subcellular 3D Photolithographic BarcodingAlfred Larsson9The evolution of gene CNVs in C. rubellaFreja Lindstedt10Variational Approaches for Simulation-Based InferenceMayank Nautiyal11Deep Learning-driven Survival Prediction In Non-small Cell Lung Cancer Using Multiplex Immunofluorescent ImagingLove Nordling12Detection of protein-protein interactions by bio-orthogonal fluorogenic proximity probesAndreas Torell – FLASH TALK13Copy number variations and adaptation along environmental gradients in Picea abies and P. obovataQiujie Zhou\n\n\n\n\n \n\n\n\nOrganizers\n\n\n\n\nEva Tiensuu Janson\, chair SciLifeLab Uppsala committee\, Integration Director\n\n\n\nAristidis Moustakas\, SciLifeLab Uppsala committee\n\n\n\nMikael Widersten\, SciLifeLab Uppsala committee\n\n\n\nJenny Alfredsson\, SciLifeLab Uppsala committee\n\n\n\nAnna Dimberg\, SciLifeLab Uppsala committee\n\n\n\nTitti Ekegren\, project coordinator\, SciLifeLab Uppsala committee
URL:https://www.scilifelab.se/event/scilifelab-day-uppsala/
LOCATION:University Main Building\, Biskopsgatan 3\, Uppsala\, 75310
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2024/02/C13089-scaled.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241024T100000
DTEND;TZID=Europe/Stockholm:20241024T123000
DTSTAMP:20260501T195442
CREATED:20241002T123645Z
LAST-MODIFIED:20241004T071259Z
UID:10001367-1729764000-1729773000@www.scilifelab.se
SUMMARY:Discover services for data-driven life science
DESCRIPTION:Welcome to join SciLifeLab Data Centre and SciLifeLab Data Management for “Discover services for data-driven life science“-  an overview of data-driven services\, tools\, and support aimed at the fellows community. The event will also include a feedback session to help SciLifeLab Data Centre best support your specific research needs. Share your views about your current and future research needs\, e.g. state-of-the-art services that would further your research or the general research of your field\, currently not available on the SciLifeLab Data Platform. \n\n\n\nWhen: Oct 24\, 10-12.30 CET (Zoom)Target group: Scilifelab Fellows\, DDLS Fellows\, and interested participants \n\n\n\n \n\n\n\nAgenda \n\n\n\n10.00-10.10   Welcome   Johan Rung\, Head of SciLifeLab Data Centre \n\n\n\n10.10-10.35   Open Science 101 Chris Erdmann\, Head of Open Science \n\n\n\n10.35-11.00   SciLifeLab Data Management services and support Angela Fuertes-Pardo\, Data Steward\, SciLifeLab Data Centre \n\n\n\n11.00-11.05  Coffee break \n\n\n\n11.05-11.30   How to get access to Compute\, Storage\, and Hosting to support your research\, speaker TBA \n\n\n\n11.30-12.30   Feedback session: Share your needs for data-driven life science services and tools. Moderators: Johan Rung\, Head of SciLifeLab Data Centre\, and Niclas Jareborg\, NBIS \n\n\n\n \n\n\n\nFor additional information please contact SciLifeLab Data Centre at datacentre@scilifelab.se
URL:https://www.scilifelab.se/event/discover-services-for-data-driven-life-science-2/
CATEGORIES:Event
LOCATION:https://uu-se.zoom.us/j/63809262140
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241105T103000
DTEND;TZID=Europe/Stockholm:20241105T170000
DTSTAMP:20260501T195442
CREATED:20240426T130948Z
LAST-MODIFIED:20241024T073225Z
UID:10001244-1730802600-1730826000@www.scilifelab.se
SUMMARY:Postponed! New hybrid approaches to Precision Medicine: machine learning\, generative AI\, and digital twins
DESCRIPTION:Workshop postponed to the spring – date to be decided!\n\n\n\n \n\n\n\nIf you have questions or suggestions regarding symposia program\, please feel free to contact the chair of the program committee at gunnar.cedersund@liu.se. \n\n\n\nWe look forward to welcoming you to Linköping in the spring 2025! \n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\nMembers of The Data-driven Precision Medicine & Diagnostics expert group:Gunnar Cedersund\, Linköping UniversitySven Nelander\, Uppsala UniversityLars Klareskog\, Karolinska InstitutetJohan Trygg\, Umeå UniversityPatrik Georgii-Hemming\, Karolinska InstitutetPäivi Östling\, KI (adj. SciLifeLab Precision Medicine Capability lead)Francis Lee (adj. WASP-HS representative in DDLS)David Gisselsson Nord (adjunct as GMS representant)Janne Lehtiö\, chair (DDLS SG member)
URL:https://www.scilifelab.se/event/new-hybrid-approaches-to-precision-medicine-machine-learning-generative-ai-and-digital-twins/
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2024/04/PMD_web.png
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241108T140000
DTEND;TZID=Europe/Stockholm:20241108T150000
DTSTAMP:20260501T195442
CREATED:20241028T075658Z
LAST-MODIFIED:20250115T125101Z
UID:10001387-1731074400-1731078000@www.scilifelab.se
SUMMARY:Swedish Reference Genome Portal Launch
DESCRIPTION:Join us for the official launch of the Swedish Reference Genome Portal. This free service is developed and maintained by the DDLS Data Science Node in Evolution and Biodiversity (DSN-EB) team as part of the SciLifeLab Data Platform\, operated by the SciLifeLab Data Centre. At this event\, we will demonstrate how the Genome Portal reduces barriers to the visualisation and interpretation of genome data studied in Sweden\, while facilitating collaboration\, showcasing researchers’ work\, and promoting Open Science and FAIR data sharing. \n\n\n\nThe Swedish Reference Genome Portal is a web platform for showcasing\, aggregating\, and visualising non-human eukaryotic genome assemblies and genome annotations (co-)produced by researchers affiliated with Swedish institutions. The Genome Portal aims to: \n\n\n\n\nHighlight and showcase genome research conducted in Sweden.\n\n\n\nLower barriers to accessing\, visualising\, and interpreting genome data.\n\n\n\nPromote the publication of genomic annotations\, which are rarely shared.\n\n\n\nEnsure all data displayed on the Genome Portal aligns with FAIR principles and is available in public repositories.\n\n\n\n\nThe DSN-EB team comprises system developers\, data stewards\, and bioinformaticians affiliated with SciLifeLab Data Centre and the National Bioinformatics Infrastructure Sweden (NBIS)\, based at Uppsala University and the Swedish Museum of Natural History. \n\n\n\nThis service is supported by SciLifeLab and the Knut and Alice Wallenberg Foundation through the Data-Driven Life Science (DDLS) program\, as well as by the Swedish Foundation for Strategic Research (SSF). \n\n\n\nRegistration\n\n\n\n \n\n\n\nAgenda\n\n\n\n2:00-2:10 pmWelcome and introduction\, Henrik Lantz\, NBIS2:10-2:45 pmOverview of the Swedish Reference Genome Portal Introduction and live demo\, Daniel Brink\, SciLifeLab Data CentreTechnical implementation\, Rory Crean\, SciLifeLab Data CentreFeatures that boost and facilitate researchers’ work\, Angela P. Fuentes-Pardo\, SciLifeLab Data Centre2:45-3:00 pmQ&A\n\n\n\nRegistration will be open until the day of the event (November 8th\, 2024) at 12:00 CEST. \n\n\n\nThis event will be recorded and made available on the SciLifeLab Youtube channel. \n\n\n\nFor more information\, please contact dsn-eb@scilifelab.se.
URL:https://www.scilifelab.se/event/swedish-reference-genome-portal-launch/
LOCATION:Online event via Zoom
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241114T133000
DTEND;TZID=Europe/Stockholm:20241114T153000
DTSTAMP:20260501T195442
CREATED:20240904T150417Z
LAST-MODIFIED:20241014T130734Z
UID:10001342-1731591000-1731598200@www.scilifelab.se
SUMMARY:DDLS Annual Conference 2024 workshops
DESCRIPTION:During the second day of the DDLS Annual conference 2024 participants will have an opportunity to attend one of the workshops. The workshops are directed at researchers in data-driven life science in all career stages. \n\n\n\nEach workshop has a limited number of seats\, on the first come first served basis. Those registered after the limit is reached will be placed on the waiting list. \n\n\n\nThe workshops will take place in various rooms of the main venue of the conference – Hilton Slussen. All workshops start at 13:30 but end at various times. Coffee/tea and fika will be served during the workshops.  \n\n\n\nFeel free to email datacentre@scilifelab.se with any questions. \n\n\n\nWorkshops\n\n\n\nHands-on with Large Language Models\n\n\n\nHeld by: Ola Spjuth (UU\, SciLifeLab) and AI data engineers at SciLifeLab Data Centre \n\n\n\nWhere and when: November 14\, 2024 at 13:30-15:00\, room Sofokles \n\n\n\nDescription: Tools based on Large Language Models (LLMs) such as ChatGPT\, Microsoft Copilot\, Perplexity\, etc. are now widely used in various tasks such as drafting and editing texts\, analyzing data\, writing and troubleshooting code\, creating images\, etc. This workshop is aimed at researchers who never used or only recently started using LLM-based tools and would like to learn more. We will start with a theoretical introduction of how LLMs work and in which tasks they can be especially useful. Workshop participants can then choose from a number of hands-on exercises that they can complete on their own laptops. We will be available to help and answer questions. \n\n\n\n\n\n\n\nPackaging and sharing data science applications as Docker container images\n\n\n\nHeld by: Data Engineers at the SciLifeLab Data Centre. \n\n\n\nWhere and when: November 14\, 2024 at 13:30-15:30\, room Platon \n\n\n\nDescription: This workshop is aimed at life science researchers who want to share data science applications such as apps built with R Shiny\, Plotly Dash\, Gradio\, Streamlit etc. publicly or with colleagues. Docker container images are a powerful tool for packaging and sharing applications and analyses widely used in both industry and academia. During the workshop we will first present the basics of Docker and how to build Docker container images. Building on this knowledge participants will then carry out hands-on exercises on their own laptops while we will be available to help. Finally\, we will also demonstrate how to publish applications packaged as Docker images on SciLifeLab Serve (https://serve.scilifelab.se) and make them available on the web with a URL (for example\, to be used in research papers or other output). SciLifeLab Serve is a service available free of charge to all life science researchers in Sweden. The participants are welcome to bring their own data science applications\, and we can help packaging them on the spot. \n\n\n\n\n\n\n\nHow to boost your career using Open Science\n\n\n\nHeld by: Joanna Sendecka\, Suné Joubert\, & Parul Tewatia\, SciLifeLab Data Center; Ineke Luijten\, SciLifeLab Training Hub \n\n\n\nWhere and when: November 14\, 2024 at 13:30-15:30\, room Eros \n\n\n\nDescription: Over the past years\, the evaluation of researchers by institutions\, journals\, and funders has been expanded to encompass more than just publication metrics. This workshop is aimed at researchers that want to learn how to use new researcher evaluation criteria to boost their careers by increasing visibility of and gaining credit for all of their research outputs. In this workshop\, we will discuss past\, current\, and future evaluation criteria\, and will then provide hands-on exercises to demonstrate how researchers can get and give credit for a range of research outputs\, including datasets\, software\, code\, public engagement\, and training. We will do this in adherence with DORA and CoARA principles\, and the use of a variety of tools\, such as CRediT taxonomy and ORCID. \n\n\n\n\n\n\n\nRegistration\n\n\n\nSince there is a limited number of seats in each workshop please sign up only if you intend to attend. \n\n\n\nRegister to join workshops
URL:https://www.scilifelab.se/event/ddls-annual-conference-2024-workshops/
LOCATION:Hilton Slussen\, Guldgränd 8\, 104 65\, Stockholm
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2023/03/New_Clower_black_English.png
ORGANIZER;CN="SciLifeLab Data Centre":MAILTO:datacentre@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250113T130000
DTEND;TZID=Europe/Stockholm:20250115T140000
DTSTAMP:20260501T195442
CREATED:20240626T141219Z
LAST-MODIFIED:20250109T070825Z
UID:10001290-1736773200-1736949600@www.scilifelab.se
SUMMARY:Evolution in Sweden 2025
DESCRIPTION:Evolution in Sweden is a biannual meeting\, which broadly gathers evolutionary biologists working in Sweden. \n\n\n\nThe meeting is aimed to be a broad meeting on every aspect of evolutionary biology and all forms of life on earth. However\, please note that the meeting is primarily (though not exclusively) for scientists active in Swedish academic departments. We also actively encourage younger researchers active in Sweden to present their research in this forum. \n\n\n\nThe Evolution in Sweden conference is organized together with the DDLS Evolution and Biodiversity research area\, within the Data-driven Life Science (DDLS) program\, part of a 12-year SEK 3.1 billion initiative from the Knut and Alice Wallenberg Foundation. We encourage researchers working with analysis of large data sets in the fields of evolution and biodiversity to attend.  \n\n\n\nStarts on January 13 at 13:00 and ends on January 15 at 14:00 \n\n\n\nVenue: Room C4\, C building\, Campus Valla\, Linköping University\, Hans Meijers väg 12\, Linköping.  \n\n\n\nRegistration is from 9.30 until 13.00 outside the lecture hall on the 13th January.  \n\n\n\n\n\n\n\nImportant information to participants: \n\n\n\nWelcome Reception \n\n\n\nRegistration and check-in from 09:30 to 13:00 on Monday\, January 13\, followed by lunch. Lunch is paid for by the attendees\, but we have booked a restaurant next to the venue. There is no registration fee\, but fika will be provided. Lunch\, Dinner\, and Hotel are not included in the registration. \n\n\n\nPoster presenters \n\n\n\nWe kindly ask you to hang your poster in the foyer-area outside C4 during the registration; pins will be provided. Make sure to stand by your poster during the odd or even poster session depending on your abstract/poster number. Odd abstract numbers on Jan 13 and even numbers on Jan 14. The size of each poster space is 85 x 190 cm\, so posters can be up to the standard A0 format (1189 x 841 mm) in size. \n\n\n\nOral presenters \n\n\n\nPlease upload your talk to the Dropbox directory you will be invited to in a separate email. Please ensure your presentation is uploaded by the evening before your scheduled talk. Name the file using the following format: Day_Time of your slot_Name.pdf (or .ppt). Example: Tuesday_1345_Berger.pdf. \n\n\n\nTechnical Considerations: The lecture hall computers run on Windows. If you are using a Mac\, we recommend saving your presentation in .pdf format to avoid formatting issues. A manned table will be set up near the registration desk outside the conference hall\, where you can check your presentation in advance (fonts\, animations etc). \n\n\n\nLunch \n\n\n\nThe cost of lunch is at everyone’s own expense. Lunch venue is booked at the University restaurant Kårallen\, situated in the next building down from the C-building (two minutes walk from the lecture hall). \n\n\n\nSocial activities \n\n\n\nWe have a poster session on the 13th and 14th outside the lecture theatre\, and have also highlighted a conference pub in town (O’Leary’s). This was picked because of its size\, but we don’t have any actual reservations (but it is pretty huge on the inside). It is located in the main square (Storatorget)\, and several other pubs are also located on the main square or on the next street (Ågatan) for those who want to meet for a drink in the evenings. \n\n\n\nWelcome! \n\n\n\nThe Evolution in Sweden Linköping organizing committee \n\n\n\nDominic Wright (chair)\, Rie Henriksen\, Per Jensen\, Urban Friberg and Krzysztof Bartoszek \n\n\n\nProgram\n\n\n\nProgram\n\n\n\nConference book\n\n\n\nAbstract book Evolution in Sweden 2025 v6Download\n\n\n\nRegistration\n\n\n\nRegister here\n\n\n\nTo avoid empty seats\, registration will remain open until the event begins. If we reach full capacity\, a waiting list will be activated. Sign up for the waiting list\, and you will automatically receive an email when a spot becomes available. You must accept within 24h to secure the spot. If you decline\, the offer will go to the next person on the waiting list.  \n\n\n\nMake sure to cancel your registration if you cannot attend the conference. To cancel: Search for “Confirmation: Evolution in Sweden 2025” in your inbox and cancel via that Cancellation link in your individual Confirmation letter. \n\n\n\n \n\n\n\nPlenary speakers\n\n\n\nTom Gilbert – Domestication hologenomics – how did our ancestors tame the wolf?\nUniversity of Copenhagen\, Denmark \n\n\n\nComparisons of the genomes of contemporary domestic animals and plants with those of their wild relatives\, have provided a wealth of insights into not only when and where our ancestors started the process\, but also what specific genetic variants are key to modern phenotypes. Furthermore\, once coupled to palaeogenomic data\, such datasets can also even reveal the order in which such variants arose\, shedding further insights into the process itself. However\, while there is no doubt that we have learnt much about domestication in general\, and indeed for most domestic species we can clearly document the genetic basis of why the end product differs from the start\, I argue that there may be certain processes that were involved that have been largely overlooked\, in particular related to the so-called hologenome. \n\n\n\nBiography: \n\n\n\nTom Gilbert is Professor of Palaeogenomics at the University of Copenhagen\, Professor II at NTNU University Museum\, and Director of the DNRF Center for Evolutionary Hologenomics. He holds a PhD in the study of ancient DNA from the University of Oxford\, and has been active in both trying to develop methods to both expand the potential of ancient DNA to our understanding of the past\, as well as more recently leading research aimed at revisiting our understanding of ecological and evolutionary processes using hologenomic techniques – ie the integrative approach of combining host genomes with those of their microbiome. \n\n\n\n\nKees Van Oers – The epigenetics of Animal Personality\nNetherlands Institute of Ecology/ Wageningen University\, The Netherlands \n\n\n\nEpigenetic mechanisms are those molecular mechanisms that affect gene expression without changing the DNA sequence. The value of epigenetic mechanisms is increasingly recognized\, also in relation to questions in ecology and evolution. However\, epigenetic research related to behavioural variation in the natural habitat is still in its infancy. The flexible nature of epigenetic marks opens the possibility that such changes are adaptive\, while at the same time may simply be the consequence of environmental variation. Hence\, changes in epigenetic marks can function as switches in order to help an organism develop\, as signals of aging via accumulation of methylation over time\, but they also may aid organisms to cope with changing circumstances throughout their lifetime. In this presentation\, I use data of our great tit system to show examples of how tissue and cell-specific epigenetic patterns\, mainly focusing on DNA methylation\, may affect behavioral phenotypes such as exploratory behavior and reversal learning performance. I discuss what the role is of epigenetic mechanisms for behavioral adaptation to changing environments. \n\n\n\nBiography: \n\n\n\nKees van Oers is an evolutionary behavioural ecologist. He currently holds a chair in Animal Personality at Wageningen University and is senior scientist at the Netherlands Institute of Ecology (NIOO-KNAW). His research focuses on explaining the causes and consequences of individual variation in animal behaviour\, mainly cognitive and animal personality traits. He does this from an ecological and evolutionary point of view\, at the crossroads between behavioural ecology and behaviour genetics. His goal is to find answers to fundamental and strategic questions related to individual responses to changing environments. This is relevant since the world and therefore the environment is constantly changing partly due to human influences affecting biodiversity at all functional levels. \n\n\n\n\nSusan Johnston – The causes and consequences of sex differences in recombination rates.\nInstitute of Ecology and Evolution\, School of Biology\, The University of Edinburgh\, UK \n\n\n\nThe rate of meiotic recombination often shows large differences between the sexes. It can be strongly female-biased (humans)\, strongly male-biased (macaques/sheep) or somewhere in between. Understanding why this happens is key to understanding the evolution of recombination rates\, yet the causes and consequences of this phenomenon remain unknown. This talk will focus on our most recent work in house sparrows (Passer domesticus)\, with broader context from work in mammals and fish. We use genomic data in large pedigrees to characterise individual recombination rates and landscapes to: (a) investigate the heritability and genomic basis of variation in recombination rates; (b) identify genomic correlates with fine-scale sex-differences in recombination landscapes; and (c) use genomic prediction approaches to understand the relationship between recombination and fitness within each sex. Our work provides a foundation for broader understanding of the vast diversity of recombination rates in eukaryotic genomes. \n\n\n\nBiography: \n\n\n\nSusan Johnston is an evolutionary quantitative geneticist based at the University of Edinburgh\, Scotland\, where she is a Senior Lecturer and Royal Society University Research Fellow. Her research centres on using genomic information to understand selection and evolution in both wild and domesticated populations. At the moment\, her group focusses on questions related to genomic signatures of sexual conflict\, the maintenance of genetic variation in immunity\, and the causes and consequence of recombination landscape variation. She does this by taking advantage of long-term ecological datasets and deep pedigrees with genomic data in mammals\, birds and fish. \n\n\n\n\nIf you have questions\, feel free to contact the organizer\, Dominic Wright\, dominic.wright@liu.se\, Professor in Genetics\, IFM Biology\, Linköping University. Regarding DDLS-related issues\, you can ask Matthews Webster or events@scilifelab.se.
URL:https://www.scilifelab.se/event/evolution-in-sweden-2025/
LOCATION:Linköping University\, Campus Valla\, Hans Meijers väg 12\, 583 29\, Linköping
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2024/06/EvoInSwedenSmallLogo.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250203T080000
DTEND;TZID=Europe/Stockholm:20250204T170000
DTSTAMP:20260501T195442
CREATED:20240529T070047Z
LAST-MODIFIED:20250911T092745Z
UID:10001269-1738569600-1738688400@www.scilifelab.se
SUMMARY:Infection Biology Across Scales
DESCRIPTION:An EMBL-SciLifeLab-MIMS workshop on infection\n\n\n\nThe European Molecular Biology Laboratory (EMBL)\, SciLifeLab and the Laboratory for Molecular Infection Medicine Sweden (MIMS) invite you to an in-person workshop on infection biology on 3-4 February 2025 in Umeå.  \n\n\n\nThe workshop will focus on exploring complementary platforms and capabilities of the three organizations in light of the most important scientific challenges facing infection research. We are also eager to foster exchange between EMBL and Swedish scientists more widely\, with a particular emphasis on the next generation of future research leaders from Swedish excellence initiatives who are at a similar career stage as EMBL group leaders.  \n\n\n\nPlease join us for this one-and-a-half-day workshop to meet the researchers\, engage in discussions\, network with experts across a range of infectious disease research and related services and platforms\, accompanied by refreshments!  \n\n\n\nzoom link\n\n\n\nregister\n\n\n\nProgram\n\n\n\n3 February 2025\, Rotundan 11:30Soft landing with lunch\, Brashörnan13:00Welcome and opening wordsOliver Billker\, MIMS Director\, Jan Ellenberg\, SciLifeLab Director\, and Maria Bernabeu\, EMBL\, Infection Biology Transversal Theme13:15Session I: From pathogen genomes to pandemic preparedness  Chairs: Stefan Bertilsson\, SciLifeLab/SLU and John Lees\, Uppsala UniversityIntroductionStefan Bertilsson\, SciLifeLab/SLU and John Lees\, Uppsala University13:20Resources for assembly and annotation of metagenomes    Rob Finn\, EMBL-EBI Tools for modelling and epidemiology of pathogens John Lees\, EMBL-EBI 13:45Resolving microbial genomes in complex communities at the single-cell level  Laura Carroll\, SciLifeLab/Umeå University and MIMS 14:05Coffee Break14:20Functional annotation of malaria parasite genomes at scaleEllen Bushell\, Umeå University and MIMS14:40A Large Language Model for studying bacterial genome architecture\, population structure and epidemiologySam Horsfield\, EMBL-EBI 15:00Viral metagenomicsTobias Allander\, Karolinska Institutet/SciLifeLab15:20Meet the facilities & infrastructures  Venue: Galaxen. Coffee and cake served. 16:00Session II: Imaging infection – from organisms to structure  Chairs: Maria Bernabeu and Lars-Anders Carlson IntroductionBreaking and entering: capturing T. gondii invasion by multi-modal imaging Simone Mattei\, EMBL16:25Bioengineered models for malaria pathogenesis researchMaria Bernabeu\, EMBL16:40Resolving Enterobacterial Pathogenesis by Gut Organoid ImagingMikael Sellin\, SciLifeLab/Uppsala University16:55Coffee Break17:10Structural Biology with Neutrons at the European Spallation SourceEsko Oksanen\, European Spallation Source (ESS) and Lund University17:30Replication organelles of arboviruses through the lens of a cryo-electron microscopeLars-Anders Carlson\, Umeå University and MIMS17:50Mechanistic insight into mycobacterial Type VII SecretionMatthias Wilmanns\, EMBL 18:15Bus transfer to Bildmuseet (contemporary art museum) for social activity; guided introduction followed by walk to see exhibition 20:00Dinner in Bildmuseet\n\n\n\n4 February 2025\, Rotundan 08:30Soft landing with coffee09:00Session III: Microbiome  Chairs: Luisa Hugerth\, SciLifeLab/Uppsala University and Rob Finn\, EMBL-EBIIntroduction Leveraging large human cohorts to understand links between the gut microbiome and healthTove Fall\,  Uppsala University09:25Systems ecology of the human microbiome in health and disease: from molecules to mechanismsPaul Wilmes\, University of Luxemburg09:50Facilitating Microbial Research with High-Throughput Approaches & Automation Alexandra Koumousti\, EMBL 10:05Coffee Break10:20The effects of bugs and drugs during early lifeNele Brusselaers\, Karolinska Institutet10:35Drug resistance and metabolism of gut commensals at strain resolutionMariia Beliaeva\, EMBL   10:50Dietary suppression of Muc2-dependent host-microbiota mutualism in the small intestineGeorge Birchenough\, University of Gothenburg11:05Mechanistic insight into diet-dependent mucus modulation by the gut microbiotaBjörn Schröder\, Umeå University and MIMS  11:20Lunch  12:15Session IV: Antimicrobial resistance  Chairs: Nassos Typas and Linus Sandegren12:20Heteroresistance – a complex and insidious antibiotic resistance phenotypeDan Andersson\, Uppsala University12:45Rapid imaging-based antibiotic susceptibility testing for UTI\, sepsis\, and tuberculosisJohan Elf\, SciLifeLab/Uppsala University13:10Coffee Break13:25Breaking intrinsic antibiotic resistance by targeting bacterial defense mechanismsMichaela Wenzel\, Chalmers13:45Gut microbiota (counter)-selects for antibiotic resistant strains at a personalized mannerMichael Knopp\, EMBL14:05Reflection and Closing wordsAudience\, Session Chairs\, and Oliver Billker\, MIMS14:30Departure\n\n\n\nOrganizers\n\n\n\n\nSciLifeLab \n\n\n\nSciLifeLab Pandemic Laboratory Preparedness Capability\n\n\n\nSciLifeLab & Wallenberg National Program for Data-Driven Life Science\n\n\n\nMIMS\n\n\n\nEMBL\n\n\n\n\nCommittee\n\n\n\nMaria Bernabeu\, EMBLNassos Typas\, EMBLOliver Billker\, Nordic EMBL Partnership\, Umeå University\, MIMS\, DDLSUlf Ribacke\, Karolinska Institutet\, SciLifeLab Pandemic Laboratory Preparedness
URL:https://www.scilifelab.se/event/infection-biology-across-scales-an-embl-scilifelab-mims-workshop-on-infection/
LOCATION:Rotundan\, Umeå University\, Universums Gränd 4\, Umeå\, Sweden
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250306T100000
DTEND;TZID=Europe/Stockholm:20250306T160000
DTSTAMP:20260501T195442
CREATED:20250114T125459Z
LAST-MODIFIED:20250304T151829Z
UID:10001453-1741255200-1741276800@www.scilifelab.se
SUMMARY:Automation of research processes with LLMs and AI
DESCRIPTION:SciLifeLab is thrilled to invite you to the symposium ‘Automation of research processes with LLMs and AI’\, to be held on March 6 at Eva & Georg Klein lecture hall\, Biomedicum\, Karolinska Institutet Campus Solna. \n\n\n\nThe purpose of the symposium is practical knowledge sharing\, inspiration\, and reflection on the future of scientific processes in life sciences and health research. Academic\, healthcare\, and industry researchers working within the broad life sciences are welcome to attend. \n\n\n\nMore and more AI-based tools are currently being integrated in scientific research processes\, from simple academic text editing tools to automated labs empowered by large language models (LLMs) running experiments and making scientific conclusions. For researchers in life sciences and health\, developments in the AI technologies are important because of the high potential\, large monetary investments\, but also expectations about future breakthroughs.This one-day event offers an opportunity for the researchers to hear about specific examples of incorporating Large Language Models (LLMs) and other recent developments in foundational AI models in research workflows as well as to discuss the future of scientific research processes with this new technology present. \n\n\n\nWe will start the morning with inspirational talks about new advances in research workflow automation. During lunch\, there will be a possibility to network and discuss different perspectives with other attendees. After lunch we plan to have interactive sessions where the audience will have an opportunity to share and discuss visions and expectations\, including spontaneous flash/pop-up talks by the attendees. \n\n\n\nThe talks will be livestreamed through Zoom. The rest of the event is on-site in Biomedicum only. \n\n\n\nRegistration\n\n\n\nRegistration \n\n\n\nParticipation is free of charge on the first-come first-served basis. Refreshments and lunch will be served for the on-site participants. Unfortunately\, we cannot accommodate allergies or dietary preferences for those who register after March 1. If you register to listen to livestreamed talks on Zoom\, you will receive a link on the day of the event. The talks will not be recorded and saved\, only streamed live on the day. \n\n\n\nRegister to attend\n\n\n\nWaiting List \n\n\n\nTo avoid empty seats\, registration will remain open until the event begins. If we reach full capacity\, a waiting list will be activated. Sign up for the waiting list\, and you will automatically receive an email when a spot becomes available. You must accept to secure the spot. If you decline\, the offer will go to the next person on the waiting list. \n\n\n\nCancellation \n\n\n\nTo minimize empty seats and especially food waste\, you must cancel your registration if you are unable to attend the event. If a waiting list is activated\, your spot will go to someone else. Otherwise\, your cancellation will result in us covering the cost of your refreshments and lunch. \n\n\n\nIf you have questions\, please contact datacentre@scilifelab.se \n\n\n\n\n\n\n\n\n\n\n\nSpeakers\n\n\n\nOlli Kallioniemi (KI/FIMM) – AI-Empowered Life Science: How Can You Benefit Today and in the Future?\nNobel prizes\, huge tech investments\, generative AI and AI agents\, multidisciplinary expertise\, expectations on emerging superhuman intelligence\, and 1\,000+ AI-powered approved medical devices all highlight AI’s transformative potential for life scientists. Yet\, many researchers remain unaware or skeptical\, often due to limited exposure. This talk will cover AI’s current and future impact in life sciences\, highlighting how it can empower every scientist\, boost research productivity\, and foster innovative approaches. \n\n\n\nOlli Kallioniemi is the Founding Director of the SciLifeLab & Wallenberg Data-Driven Life Science (DDLS) Program and served as Director of SciLifeLab from 2015 to 2024. He is a Professor of Molecular Precision Medicine at Karolinska Institute (OnkPat) and holds a joint appointment at the Institute for Molecular Medicine Finland (FIMM) at the University of Helsinki. He has recently focused on exploring and explaining the opportunities that AI offers for life science research and how AI can benefit every researcher. \n\n\n\n\nMelissa Harrison (EMBL-EBI) – How Europe PMC uses and supports LLM development for research workflows\nEurope PubMed Central (Europe PMC)\, developed by EMBL-EBI\, is a free\, open-access literature database containing over 45 million life science literature outputs; over 10 million of which are full text. This includes almost a million preprints from 34 different servers. Associated research outputs\, such as data\, are linked to the literature\, which is also enriched with additional persistent identifiers\, text mined funding information\, and text mined annotations of the articles and supplementary files. Annotations are dictionary-based and are being transitioned to a machine learning approach. This talk will discuss the potential of this transition and will explore how Europe PMC plans to leverage machine learning in the future while maintaining the community’s trust in its curated\, open dataset as a reliable resource for scientific research. Words of caution about AI and ghost workers\, including biocurators\, will also be mentioned. \n\n\n\nMelissa Harrison is the Lead of Literature Services at EMBL’s European Bioinformatics Institute (EMBL-EBI). After completing a biology degree at King’s College London she worked in scientific publishing for two decades. In her previous role at eLife she honed her skills in open science policy and implementation and has been instrumental in the propagation of open persistent identifiers and metadata. \n\n\n\n\n Aasa Feragen (DTU) – AI fairness — it doesn’t have to be hard\nAasa Feragen is a Professor in Medical Image Analysis at the Technical University of Denmark (DTU).  \n\n\n\n\nMartin Eklund (KI) – Limitations of foundation models for achieving optimal performance\nFoundation models are undoubtedly highly useful. But are they a panacea for advancing performance of deep learning systems? If not\, what are their limitations? In the presentation\, we explore these questions using large and rich digitized prostate pathology data as an example. \n\n\n\nMartin Eklund is professor of epidemiology at the Department of Medical Epidemiology and Biostatistics where he focusses his research on reducing the mortality of prostate cancer as well as the negative side effects of today’s imprecise diagnostics and treatment selection. He works a lot on development of AI systems for clinical decision making. \n\n\n\n\nPrashant Singh (UU) – AI and Optimization for Science: Principles and Pitfalls\nData-driven science has emerged as a modern pillar of science\, complementing theory\, experiments and computational approaches. Scientific workflows – from design of experiments to data analysis\, have greatly benefited from tools and techniques from various fields including optimization\, statistics\, computational science\, etc. In this talk\, we will motivate principled approaches for various stages of the scientific research pipeline\, from traditional foundations such as optimization\, to recent AI-based advances such as large-language models. \n\n\n\nPrashant is an Assistant Professor\, and a SciLifeLab fellow hosted at the Department of Information Technology\, Science for Life Laboratory\, Uppsala University. His research interests involve developing machine learning and optimization methods to enable fast\, data-efficient analysis and processing of scientific data\, particularly in the domain of life sciences. \n\n\n\n\nPhil Ewels (Seqera) – Building and testing scientific workflows with LLMs and AI agents\nNextflow has become the leading tool for scientific workflows in bioinformatics\, but writing workflows can be challenging. This talk introduces Seqera AI\, a new tool that helps generate Nextflow pipelines either from scratch\, from existing scripts\, or even other workflow languages. I’ll discuss how Seqera AI is able to generate best-practice DSL2 code that follows nf-core guidelines\, and how we go beyond just code generation: creating and running test suites with AI agents\, streamlining development while improving code quality and validation. \n\n\n\nPhil Ewels is Senior Product Manager for Open Source at Seqera\, working with Nextflow\, MultiQC\, nf-core and Wave. Before joining Seqera in 2022\, Phil worked at the National Genomics Infrastructure (NGI) at SciLifeLab in Stockholm\, Sweden. It was through this work that Phil became involved with Nextflow and eventually co-founded the nf-core community. Phil’s career has spanned many disciplines from lab work and bioinformatics research in epigenetics\, through to software development and community engagement. He is the author of MultiQC\, SRA-Explorer\, QCFail.com\, and has a PhD in Molecular Biology from the University of Cambridge\, UK. \n\n\n\n\nProgram\n\n\n\nAutomation_of_research_workflows_March_6_programmeDownload
URL:https://www.scilifelab.se/event/automation/
LOCATION:Eva & Georg Klein lecture hall\, Biomedicum\, Solnavägen 9\, 171 65 Solna\, Solna\, 171 65\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2025/01/circos_cropped.png
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BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250317T120000
DTEND;TZID=Europe/Stockholm:20250318T150000
DTSTAMP:20260501T195442
CREATED:20241204T083941Z
LAST-MODIFIED:20250312T072352Z
UID:10001415-1742212800-1742310000@www.scilifelab.se
SUMMARY:Imaging in Cell and Molecular Biology
DESCRIPTION:The DDLS research area symposia series aims to engage and build a strong national scientific community around the DDLS research themes. Each of the four areas arranges two symposia per year. Everyone interested in data-driven research is welcome to take part. We want to bring together researchers\, industry\, and healthcare to foster collaboration and push the frontiers of data-driven life science. \n\n\n\nThe DDLS research area Expert Group in Cell and Molecular Biology invites all interested in Data-driven life science to meet\, present\, interact\, and discuss Imaging in Cell and Molecular Biology.  \n\n\n\nThe event will take place at Ångström Laboratory in Uppsala and will include presentations from international and national invited speakers and selected abstracts. The event is free of charge.  \n\n\n\nDate: March 17 – 18\, 2025 \n\n\n\nStart: at 12:00 on March 17\, with lunch and registration.  \n\n\n\nEnd: with lunch 12:20-13:15 on March 18. \n\n\n\nVenue: Room Heinz-Otto Kreiss\, Ångström Laboratory\, Lägerhyddsvägen 1\, 752 37 Uppsala. Find your way – Maze map link here!  \n\n\n\nFind your way: From Uppsala Central Station\, take buss № 4 (place B4) to Polacksbacken (find timetables for Uppsala City buses here). \n\n\n\nPoster session\n\n\n\nThe poster session starts at 17:10 with networking and refreshments. Find the poster list and abstracts below. \n\n\n\nFor accepted Posters\, if you have registered for: \n\n\n\n\nPaper/canvas poster: Hang your poster during the coffee break in Room 101136 (Evelyn Sokolowski). \n\n\n\nDigital poster: Display your presentation in Room 101142 (next to Evelyn Sokolowski).\n\n\n\n\nPins will be available\, and the poster boards will be marked with poster numbers.  \n\n\n\nList Posters Abstract v6Download\n\n\n\nCompany Exhibition\n\n\n\nYou will have the opportunity to meet with the following companies during the symposia: \n\n\n\n\nCarl Zeiss AB\n\n\n\nBioNordika AB\n\n\n\nTdB Labs AB\n\n\n\nMicromedic AB\n\n\n\nBruker Nordic AB\n\n\n\n10x Genomics Sweden\n\n\n\n\nCompany contact Erika Erkstam\, erika.erkstam@SciLifeLab.uu.se. \n\n\n\nIn compliance with GDPR regulations\, conference participants may not be added to company newsletters\, mailing lists\, or similar subscriptions without their explicit consent. \n\n\n\nRegistration\n\n\n\nThe registration deadline is March 3. To avoid empty seats\, registration will remain open until the event begins\, BUT registering after March 3 requires you to write your name on a name tag at the on-site registration. Unfortunately\, we cannot accommodate allergies or dietary preferences for those who register after March 3. \n\n\n\nMarch 4: The event has reached full capacity\, so a waiting list has been activated. If you sign up for the waiting list\, you will automatically receive an email when a spot becomes available. You must accept within 24 hours to secure the spot. If you decline\, the offer will go to the next person on the waiting list.  \n\n\n\nRegistration\n\n\n\nCancellation\n\n\n\nTo minimize empty seats and food waste\, you must cancel your registration if you are unable to attend the symposia. Cancel via the Confirmation email or send an email to events@scilifelab.se. \n\n\n\n\n\n\n\nInvited speakers\n\n\n\nDownload the Speaker abstracts: \n\n\n\nDDLS CMB SpeakersDownload\n\n\n\nMarta Carroni\, SU\nTitle of talk: Structural basis for bacterial protein disaggregation and proteolysis  \n\n\n\nAbstract: Protein homeostasis is meticulously maintained across all cells\, spanning from archaea to humans. Any deviation from the equilibrium of the proteome\, induced by stress or cellular aging\, leads to the accumulation of misfolded proteins\, contributing to cellular toxicity. A complex proteostasis network actively manages misfolded proteins through processes such as refolding\, degradation\, or sequestration into intracellular inclusions. Integral to this protein quality control system are ATPases from the AAA+ superfamily (ATPases Associated to a variety of cellular Activities). \n\n\n\nThese AAA+ proteins\, universally present in organisms\, share a common structural fold for ATP hydrolysis\, but each possesses distinct function-specific domains\, enabling specialization in particular cellular activities and interactions with regulatory protein partners. \n\n\n\nOur work focuses on the structural investigation of bacterial Hsp100 AAA+ chaperones involved in protein quality control. We aim at understanding their fine-tuned regulation\, which is absolutely required by the bacterium to survive harsh environment conditions and useful for us in the effort of killing pathogenic bacterial strains. Using cryo-EM in combination with biochemical functional assays\, we can describe the molecular tuning mechanisms used by bacteria to assure the disaggregation or proteolysis of toxic protein species only\, while leaving intact functional protein molecules. \n\n\n\nBio: Marta Carroni is the Head of the Swedish National Cryo-EM Facility at SciLifeLab in Stockholm\, whose start and development she drove since its institution in 2016. She is a trained structural biologist and more specifically an expert in cryo electron microscopy (cryo-EM)\, technique on which she received extensive training since 2007 first at Imperial College London and then at Birkbeck College London\, under the supervision of Helen Saibil. Marta Carroni has initiated and trained in electron microscopy and image processing a large number of researchers in Sweden and abroad; she is often invited as teacher at cryoEM symposia and workshops. For this contribution\, she has been named one of the female innovators by the Italian Association of Women Inventors and Innovators in 2018 and awarded the Hugo Theorell price in 2023. Since 2020\, she is also the director of the Cellular and Molecular Imaging platform at SciLifeLab where she oversees the integration between different imaging modalities. Since 2022\, thanks to fundings form KAW\, SSF and support from Stockholm University\, she can run independent research projects with her group\, composed of 2 PhD students and 2 postdocs\, mainly looking at AAA+ molecular motors and their regulatory mechanisms in bacterial and human systems. The group often hosts master and Erasmus students and\, while developing an independent research path\, fosters many collaborations in Sweden and abroad.  \n\n\n\n\nJan Ellenberg\, Director SciLifeLab\nTitle of talk: Quantitative Imaging of Protein Networks and Genome Structure in Single Human Cells and an Outlook on Alpha Cell \n\n\n\nAbstract: The rapid development of new imaging technologies allows unprecedented insights into the molecular machinery inside living cells and organisms. For the first time\, light and electron microscopy have molecular sensitivity and resolving power in situ\, and\, if used together\, can connect structural detail with molecular dynamics of the whole cell. Aided by machine learning driven image analysis powered by open sharing of image data\, this provides unprecedented opportunities for new insights into the molecular mechanisms that drive life’s core functions at the scale of the cell. \n\n\n\nI will present the progress we have made to study one of life’s most fundamental functions\, cell division\, by mapping the dynamic protein network\, assembly of individual protein complexes and genome re-folding that drive it. Our work has studied cell division in human cancer cells and early mammalian embryos using advanced cross-scale imaging methods\, including light-sheet\, quantitative fluorescence correlation spectroscopy (FCS)-calibrated\, super-resolution and correlative light and electron microscopy. The quantitative integrated molecular data that these new technologies deliver\, allow us to better understand how the molecular machinery functions in space and time to ensure faithful cell division and prevent the errors that underlie congenital disease\, infertility and cancer. \n\n\n\nBio: Since July 2024\, Professor Ellenberg is appointed Director of SciLifeLab. Jan Ellenberg is distinguished for many contributions to the cell biology and imaging field. The majority of these were made at the European Molecular Biology Laboratory (EMBL) where he is Senior Scientist and Head of the Cell Biology and Biophysics Unit. His major research contributions cover several aspects of the cell division cycle and nuclear organization\, including systematic analysis of mitosis\, nuclear pore complex structure and assembly\, as well as chromatin organization and formation and segregation of mitotic and meiotic chromosomes.His goal has been to obtain structural and functional measures of the required molecular machinery inside cells using quantitative 4D imaging\, single molecule spectroscopy\, as well as light sheet and super-resolution microscopy\, which his group is constantly developing and automating to address all molecular components comprehensively. \n\n\n\n\nAnja Hauser\, DRFZ\, Germany\nTitle of talk: Functional\, multidimensional optical microscopy to analyze the function of myeloid cells during bone regeneration \n\n\n\nAbstract: Focusing on bone regeneration after injury\, we aim to understand how the tissue microenvironment affects the metabolism of myeloid cells in the bone marrow over time\, and how that impacts on cell function. We previously demonstrated that CX3CR1+ myeloid cells act as trailblazers for osteogenic type H vessels in the bone marrow. In order to analyze this process in 3D\, we developed a tissue clearing\, staining and light sheet fluorescence microscopy imaging pipeline called MarShie\, optimized to image the entire intact femur at subcellular resolution down to the deepest bone marrow regions. To analyze the three-dimensional dataset\, we applied a machine learning approach\, enabling us to segment thousands of cells. We find that during homeostasis CX3CR1+ myeloid cells localize in perivascular niches\, whereas CD169+ myeloid cells are dispersed in the parenchyma. After injury\, CX3CR1+ myeloid cells relocate and sequester the injury site prior to vascularization. Analysis of the femur after full osteotomy reveals that vessel sprouting is initiated at periosteal regions.Phenotypes and functions of immune cells are tightly linked to their metabolic profiles\, which in turn is affected by changes in the tissue microenvironment. We developed a lens implant for longitudinal intravital imaging of the mouse femur\, to enable micro-endoscopic fluorescence lifetime imaging (FLIM) for metabolic profiling at the same tissue region over the whole time course of bone healing. Using a reference system of fluorescence lifetimes derived from the ubiquitous metabolic co-enzymes NADH and NADPH (NAD(P)H)\, we can determine enzymatic activities in vivo. This approach allows us to identify a high degree of dynamics in dominant metabolic pathways for energy production. Additionally\, we distinguish pathways associated to cellular function and cellular state\, i.e. oxidative burst (NADPH oxidase activity) and dormancy or death. Under in vivo conditions\, myeloid cells with various metabolic profiles\, i.e. using other pathways for energy production than the anaerobic pathway associated with pro-inflammatory cells\, perform the oxidative burst necessary for phagocytosis. This demonstrates that a high metabolic flexibility of myeloid cells in vivo. \n\n\n\nBio: Anja Hauser holds the Professorship for Immune Dynamics at Charité – Universitätsmedizin Berlin\, and is head of Program Area “Cell and Tissue Immunology” at Deutsches Rheuma-Forschungszentrum Berlin\, Germany.Anja is a trained veterinarian who received her degree at the Tierärztliche Hochschule Hannover\, Germany. During her PhD thesis\, she investigated microenvironmental conditions that promote plasma cell longevity in tissues and became interested in the spatial organization of immune cells. Her postdoctoral work at Yale University School of Medicine focused on the dynamics of germinal center B cells\, which she analyzed by intravital microscopy. Since founding her own laboratory\, she has broadened her focus from the analysis of B cells to other adaptive and innate immune cells\, with a particular focus on the analysis of immune-stroma interactions and the signals that maintain chronic inflammation.Thus\, her work is centered around the basic concept that the immune system is organized in a spatial and temporal manner. To that end\, she develops and applies advanced imaging technologies. Anja is founding member of the European Society for Spatial Biology. \n\n\n\n \n\n\n\n \n\n\n\n\nSverker Holmgren\, Data Science Node\, Chalmers\nTitle of talk: National Data Services for Imaging in Cell and Molecular Biology \n\n\n\nAbstract: The Gothenburg DDLS Data Science Node is developing and deploying national services for managing and analyzing images in CMB. The node works together with the SciLifeLab Data Center\, and the areas covered are selected jointly with the DDLS Expert Group in CMB. Currently\, a national Open Microscopy Environment service (OMERO) for image data management and storage is being deployed\, and this will be connected to High Performance Computing resources for analysis\, using e.g. AI models\, and later also to image repositories for preservation and open sharing. In the next phase\, the underlying work setting up this national service is used to develop and deploy two other sets of prioritized services. \n\n\n\nBio: Sverker Holmgren is the Director of Chalmers e-Commons at Chalmers University of Technology\, where he is also a Professor of Scientific Computing. Chalmers e-Commons is Chalmers’ digital infrastructure for research\, providing integrated support to Chalmers researchers with a focus on data management\, analysis\, and data publication. Together with Chalmers Facility for Computational Systems Biology\, Chalmers e-Commons hosts the Gothenburg DDLS Data Science Node in Cell and Molecular Biology. Chalmers e-Commons is also the Chalmers node in other selected national and international digital infrastructures and initiatives\, e.g. the National Academic Infrastructure for Supercomputing (NAISS)\, the Swedish National Data Service (SND)\, and the National Research Infrastructure for Data Visualization (InfraVis). \n\n\n\nHolmgren has a long history of engaging in data and large-scale computing infrastructures locally\, nationally\, and internationally. Besides leading the local effort at Chalmers\, he is a member of national and international reference groups and initiatives on data management. Holmgren is a permanent Expert in the Swedish Delegation to the European Strategic Forum for Research Infrastructure (ESFRI)\, a member of the ESFRI IG\, and a Swedish Delegate in the European e-Infrastructure Reflections Group (e-IRG). Earlier\, Holmgren held a professorship at Uppsala University where he also served as the Dean of Mathematics and Computer Science for six years. \n\n\n\n\nRasmus Krogh Norrild\, DTU\, Denmark\nTitle of talk: High-throughput experimental approaches for quantifying the thermodynamics of biomolecular condensate formation \n\n\n\nAbstract: Biomolecular condensates (BMCs) are phase-separated and membraneless compartments enriched in specific biomolecules\, playing key roles in biological function and disease. Understanding how BMC formation depends on solution conditions\, amino acid sequence\, and nucleotide sequence is crucial\, particularly for applications in drug discovery. High-throughput methods are therefore highly valuable for large-scale screening and for elucidating the fundamental driving forces of condensate formation. In this seminar\, I will present Condensate Partitioning by mRNA-Display (CPmD)\, a novel high-throughput approach based on mRNA display (Norrild et al.\, bioRxiv 2024). CPmD enables the simultaneous analysis of partitioning behaviour for tens of thousands of peptides and their corresponding synthetic mRNAs within BMCs\, offering new insights into the thermodynamics of condensate formation. To validate CPmD\, we employed two microfluidics-based methods\, Capflex (Stender\, Ray\, Norrild et al.\, Nat. Commun. 2021) and TDIPS (Norrild et al.\, Angew. Chem. Int. Ed. 2024)\, both leveraging the commercially available FIDA1 microcapillary system. These methods demonstrate how proteome-scale CPmD data on peptide partitioning can directly inform on biomolecular condensate formation of the proteins from which the peptides originate. \n\n\n\nBio: I am a postdoctoral researcher at the Technical University of Denmark (DTU)\, specializing in protein biophysics. I have a MSc in Biochemistry from the University of Copenhagen and I did my PhD in Biophysics at DTU on Biophysics. My research focuses on understanding how protein structure\, stability\, and phase behavior contribute to cellular function and disease. I combine experimental and data-driven computational approaches to study and engineer dynamic proteins\, especially intrinsically disordered regions of these. My goal is to integrate quantitative biophysics with cell biology to uncover new insights into protein function in complex biological systems. \n\n\n\n\nWei Ouyang\, DDLS Fellow\, KTH\nTitle of talk: Unleash the Power of Generative AI for Data-Driven Cell Biology \n\n\n\nAbstract: This talk presents the ongoing work of AICell Lab (https://aicell.io) focusing on developing generative AI\, diffusion models for human cell modeling\, and AI-driven automation in microscopy and robotics. We focus on the development of the REEF Microscopy Imaging Farm\, which aims to create fully automated imaging systems that generate high-quality datasets for cell simulation. We are also building scalable platforms like ImJoy and Hypha\, which power the BioImage Model Zoo—a community-driven repository enabling easy AI model testing. Additionally\, our BioImage Chatbot\, an AI agent built on a bioimaging knowledge base\, is being extended for automated scientific discovery. These efforts converge in the Hypha platform\, connecting hardware\, AI models\, and users to advance whole-cell modeling and redefine in-silico research and drug discovery. \n\n\n\n\nErdinc Sezgin\, KI\nTitle of talk: Physical properties of cells and nanoscale bioparticles as new biomarkers of health and disease \n\n\n\nAbstract: Remodelling of our cells as response to environmental changes is essential for their survival and function. Although numerous studies aimed at finding protein markers during such cellular processes\, there is a major gap in our understanding of how collective biophysical properties of the cells (such as stiffness\, membrane fluidity\, viscosity etc) alter during these crucial biological processes. Similarly\, our understanding of how biophysical properties of cells change in diseases is also limited. To gain a thorough mechanistic perception of cellular processes and diseases\, it is essential to fill this gap and have a clear and quantitative picture of biophysical remodelling of the cells.We and others have made extensive effort to unravel the biophysical aspects of cells in a quantitative manner. To achieve this\, we developed advanced imaging approaches that could reveal the molecular details with very high spatiotemporal resolution. These technologies allowed us to see how biophysical properties of cells play crucial roles for signalling from molecular to cellular level. Although these technologies were extremely useful to study biophysical aspects of cellular life at the molecular level\, their low sampling (one cell at a time) has been a major obstacle to apply them to medical problems that require measuring thousands of cells. This can be overcome with high throughput methodologies that can robustly report on the ensemble biophysical properties of cells which require reliable reporters and instruments. Thus\, while developing advanced instrumentation\, we also develop reliable probes to quantify different biophysical properties of cells. Here\, I will discuss our approach from probe development to high throughput biophysical analysis \n\n\n\nBio: Erdinc Sezgin studied Genetics and Bioengineering at the Yeditepe University\, Istanbul Turkey. He next joined International Max Planck Research School for PhD in Dresden\, Germany. After graduation\, he obtained EMBO\, Marie Curie and Newton fellowships to perform his postdoctoral research in immunology and imaging at University of Oxford. Since 2020\, he has been leading his independent lab as an Associate Professor at Karolinska Institutet and SciLifeLab. He is currently an EMBO Young Investigator and a Visiting Faculty at University of Oxford. \n\n\n\n\nEduardo Villablanca\, KI\nTitle of talk: Unraveling the Molecular Architecture of the Intestinal Barrier: Insights from Spatial Transcriptomics \n\n\n\nAbstract: The complex cellular network that constitutes the intestinal barrier is crucial for maintaining health and preventing diseases. In this talk\, I will present the remarkable capabilities of spatial transcriptomics (ST) in unveiling the molecular organization of the entire colonic tissue during mucosal healing and tumorigenesis. By leveraging ST\, we revealed a previously undiscovered regionalization of the colon’s transcriptomic landscape under steady state conditions\, which undergoes dramatic changes during mucosal healing. We identified spatially organized transcriptional programs that define compartmentalized mucosal healing\, including regions exhibiting dominant wired pathways. Furthermore\, I will discuss the translational potential of our findings by mapping transcriptomic modules associated with human diseases. \n\n\n\nBio: Dr. Villablanca is a developmental biologist turned immunologist with expertise in cell migration and mucosal immunology. He began his research using zebrafish as an in vivo model before shifting his focus to immunology during his PhD in Molecular Medicine at San Raffaele University in Milan\, Italy. His interest in intestinal leukocyte trafficking led him to Harvard Medical School\, where he trained as a postdoctoral fellow in Dr. Rodrigo Mora’s lab. After four years\, he was promoted to Instructor in Medicine and joined Dr. Xavier’s lab to study inflammatory bowel disease (IBD) risk genes and their role in intestinal immune homeostasis.In late 2014\, Dr. Villablanca was recruited to establish his own laboratory at the Karolinska Institute’s Division of Immunology and Respiratory Medicine in Sweden. Now a Professor of Gastrointestinal Immunology\, Wallenberg Fellow\, and ERC awardee\, he leads a research team integrating developmental biology\, mucosal immunology\, and systems biology to uncover how intestinal homeostasis is maintained and how its disruption contributes to disease.Visit the Villablanca lab webpage here or watch the research video summary here.BsKy: @ejvillablanca.bsky.social \n\n\n\n\nFor questions about the Program\, please contact the Scientific Committee: \n\n\n\n\nIda-Maria Sintorn\, UU\n\n\n\nMarc Friedländer\, SU\n\n\n\n\nAbout the event\, please contact Project leader: Erika Erkstam\, Operations office\, SciLifeLab \n\n\n\nProgram\n\n\n\nDDLS-Symposium-PROGRAM-NY2Download\n\n\n\nMore information about the Data-driven Life Science Research area\n\n\n\n\n\n\n\nDDLS Cell and Molecular Biology
URL:https://www.scilifelab.se/event/imaging-in-cell-and-molecular-biology/
LOCATION:Ångström Laboratory\, Lägerhyddsvägen 1\, Uppsala\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2023/03/CMB_web.png
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250318T150000
DTEND;TZID=Europe/Stockholm:20250321T140000
DTSTAMP:20260501T195442
CREATED:20250109T082032Z
LAST-MODIFIED:20250318T173404Z
UID:10001427-1742310000-1742565600@www.scilifelab.se
SUMMARY:DDLS Research School Annual Meeting
DESCRIPTION:The first DDLS Research School Annual Meeting for PhDs and PIs\, including DDLS fellows. This meeting is by invitation only. DDLS PhD students are invited to participate the entire duration of the meeting (18-21 March)\, while their supervisors are invited to participate 18-19 March (afternoon-to-lunch) \n\n\n\n \n\n\n\nProgram\n\n\n\nTuesday March 18: \n\n\n\n14:30-15:30Registration and coffeeLilla Kongressen15:30-16:30Welcome and introduction to the DDLS Research SchoolLilla Kongressen16:30-17:15– PIs: meeting with DDLS Research School Directors                               – PhD students: group activity– Room 7E – Lilla Kongressen17:30-18:3017:30-19:00– PIs: questions and answers with DDLS RS Directors – PhD students: Social activity – Lilla Kongressen– House 9\, Stora Kongressen19:00Welcome drinkLobby\, main building19:30DinnerRestaurant\, main building\n\n\n\n\n\n\n\nWednesday March 19:  \n\n\n\n07:00   Breakfast opens08:30-10:10PI presentations: CMB & EBI Stora Kongressen10:10-10:40Coffee with Group PhotoStora Kongressen10:40-12:30PI presentations: EB & PMD Stora Kongressen12:45– Lunch – Set up your poster in Stora KongressenMain building13:45Bus departure for PIs Outside main building14:00-16:30 Workshop led by Maja Neiman\, SwedenBioStora Kongressen16:30-18:30Poster session with refreshmentsStora Kongressen19:00  Dinner Restaurant\, main building\n\n\n\n\n\n\n\nThursday March 20:     \n\n\n\n08:30-17:00Course: Open science in the Swedish contextLilla Kongressen11:30LunchRestaurant\, main building17:00-18:30Free time18:30 Dinner Restaurant\, main building20:00 Music quiz House 9\, Bar\n\n\n\n\n\n\n\nFriday March 21:    \n\n\n\n09:00-10:00Introduction to upcoming DDLS Research School coursesLilla Kongressen10:00-10:30CoffeeLilla Kongressen10:30-11:30Group work: future courses in the DDLS Research SchoolLilla Kongressen11:30-12:00Summary of the Annual Meeting [RS directors]Lilla Kongressen12:00 Lunch. Annual Meeting ends.Restaurant\, main building13:15 Bus departureOutside main building\n\n\n\n\n\n\n\nBustransfer\n\n\n\nDetails regarding bus transfer will be sent by email to those who have signed up for bus in their registration \n\n\n\n18 March Bus from Uppsala at 13:15from Stockholm at 13:00 \n\n\n\n19 March From Djurönäset to Stockholm and Uppsala 13:45 \n\n\n\n21 March From Djurönäset to Stockholm and Uppsala 13:15
URL:https://www.scilifelab.se/event/ddls-research-school-annual-meeting/
LOCATION:Djurönäset\, Seregårdsvägen 1\, Djurhamn
CATEGORIES:Community
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250425T100000
DTEND;TZID=Europe/Stockholm:20250425T110000
DTSTAMP:20260501T195442
CREATED:20250403T100003Z
LAST-MODIFIED:20250403T100224Z
UID:10001522-1745575200-1745578800@www.scilifelab.se
SUMMARY:Towards an interpretable deep learning model of cancer cells.
DESCRIPTION:Avlant Nilsson\, DDLS fellow\, Karolinska Institutet \n\n\n\nNBIS and SciLifeLab Data Centre arrange an open SciLifeLab AI Seminar Series aimed at knowledge-sharing about Artificial Intelligence and applications in the Life Science community. The seminar series is open to everyone. The seminar is run over Zoom on the third Friday of the month during academic terms\, typically between 10 and 11 am\, with approx. 45 min presentation and 15 min discussion. \n\n\n\nAbstract \n\n\n\nCancer emerges from complex molecular interactions that drive pathological cells states. To model these interactions\, we develop deep learning frameworks of cellular signaling\, gene regulation\, and metabolism. Our approach embeds prior knowledge networks into a recurrent architecture\, allowing us to capture cellular dynamics by training on omics data across different perturbations and conditions.At the core of our modeling is a propagator function that predicts the next cell state based on the current state\, enabling the simulation of molecular state transitions over time. To ensure biological plausibility\, we employ a technic based on feature embedding and superposition that encodes molecular identities in a structured feature space while restricting the predictive input for each molecular state to its direct network connections. These structured embeddings facilitate the use of a universal function allowing generalization across different molecules\, cell types\, and experimental settings.By constraining learned representations to known molecular entities\, our framework maintains interpretability while enabling data-driven inference. Ultimately\, we aim to integrate our models into a unified representation of cellular behavior. Bridging mechanistic understanding with predictive modeling\, this work lays the foundation for AI-driven precision medicine\, offering new tools to simulate and control cancer cell states.
URL:https://www.scilifelab.se/event/towards-an-interpretable-deep-learning-model-of-cancer-cells/
LOCATION:Online event via Zoom
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250429T150000
DTEND;TZID=Europe/Stockholm:20250429T160000
DTSTAMP:20260501T195442
CREATED:20250409T152618Z
LAST-MODIFIED:20250409T152810Z
UID:10001526-1745938800-1745942400@www.scilifelab.se
SUMMARY:Unlocking Innovation: Best Practices for Corporate-Academic Partnerships
DESCRIPTION:SwedenBIO’s IP Task force is inviting you to an engaging seminar on how to level up your academic collaborations. We will present our Term Sheet Checklist\, a tool designed to simplify and secure successful agreements between industry and academia in the Life Science sector. You’ll also get an exclusive look at the Data Driven Life Science (DDLS) program\, showcasing their unique training and research opportunities for industry PhD students. \n\n\n\nKey Topics: \n\n\n\nIntroduction of the Data Driven Life Science program (DDLS) \n\n\n\nUnlocking Innovation and collaboration \n\n\n\nLaunch of Term Sheet Checklist \n\n\n\nVenue\n\n\n\nStockholmCirio Advokatbyrå AB\, Biblioteksgatan 9View mapGothenburgGoCo Health Innovation City\, Entreprenörsstråket 10View mapJoin OnlineYou will get an invitation when the event is close \n\n\n\nRead more and Register here
URL:https://www.scilifelab.se/event/unlocking-innovation/
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250505T120000
DTEND;TZID=Europe/Stockholm:20250506T130000
DTSTAMP:20260501T195442
CREATED:20241220T130709Z
LAST-MODIFIED:20250504T184509Z
UID:10001423-1746446400-1746536400@www.scilifelab.se
SUMMARY:Infectious disease epidemiology: surveillance\, forecasting and modelling
DESCRIPTION:Join the Data-driven Epidemiology and Biology of Infection research area for an inspiring Lunch-to-lunch meeting filled with science\, networking\, and discussions. \n\n\n\nThis event is arranged by the Data-driven Life Science program (DDLS)\, hosted by SciLifeLab and Knut and Alice Wallenberg Foundation. \n\n\n\nThe DDLS research area symposia series aims to engage and build a strong national scientific community around the DDLS research themes. Each of the four areas arranges two symposia per year. Everyone interested in data-driven research is welcome to take part. We want to bring together researchers\, industry\, and healthcare to foster collaboration and push the frontiers of data-driven life science. \n\n\n\nDate: May 5 – 6\, 2025 \n\n\n\nTime: Lunch to Lunch \n\n\n\nVenue: PÄRLAN – Albano – Hus 1 / Plan 6\, See map. \n\n\n\n \n\n\n\nRegistration\n\n\n\nThe event has reached full capacity. \n\n\n\n\n\n\n\nProgram\n\n\n\nDDLS EBI program_May 2025_v3Download\n\n\n\nPractical information\n\n\n\nDirections: Albano is between the main campus of Frescati and Roslagstull. You can either walk from T: Tekniska högskolan (exit Körsbärsvägen) or T: Universitet. By bus you can either take bus 50 from T-Odenplan (direction Universitetet) or from T-Universitetet (direction Odenplan) and get off at Albano. It is easiest to enter the buildings from the main road Roslagsvägen – then you are on level 2.  \n\n\n\nStart: at 12:00 with Lunch or 13:00 in the Lecture hall on May 5. \n\n\n\nRegistration: We’ll begin with Registration (from 11:45) and Lunch\, 12:00-12:45 at Restaurant Proviant Albano located in House 2 on Level 4. You need to register with your name or QR code (sent by email on May 5) at the SciLifeLab table outside the Restaurant to get a lunch coupon and a name badge before eating lunch. The Lecture hall is a short walk from the lunch restaurant. \n\n\n\nPlease be seated in Pärlan at 13:00 to start the Symposium. If you do not attend lunch\, you can register and get your name badge in the Lecture room. \n\n\n\nLecture hall: Pärlan. Located on floor 6 in House 1. \n\n\n\nImportant: The room is only accessible by elevator. Be sure to find the correct elevator\, which is located deep inside the building\, heading towards House 2. The code to the door and the elevator will be written on your name badge and communicated in the Welcome emails. \n\n\n\n \n\n\n\nmap_albanoDownload\n\n\n\nOrganizing committee:\n\n\n\n\nTom Britton\, Stockholm University\n\n\n\nStefan Engblom\, Uppsala University\n\n\n\nLaura Carroll\, Umeå University\n\n\n\nTove Fall\, Uppsala University\n\n\n\n\nQuestions can be answered by the Organizing Committee or events@scilifelab.se \n\n\n\nRead more about the Research area
URL:https://www.scilifelab.se/event/ddls-ebi-symposium/
LOCATION:PÄRLAN – Albano – Hus 1 / Plan 6\, Roslagsvägen 26\, Stockholm\, 114 19
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2023/03/EBI_web.png
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250520T080000
DTEND;TZID=Europe/Stockholm:20250521T170000
DTSTAMP:20260501T195442
CREATED:20250414T144013Z
LAST-MODIFIED:20250520T071639Z
UID:10001501-1747728000-1747846800@www.scilifelab.se
SUMMARY:Data Management in Life Science
DESCRIPTION:Navigate Repositories\, GDPR\, and Support Networks with Confidence\n\n\n\nDiscover how to effectively manage\, share\, and safeguard your research data through practical guidance from both local and national experts. Engage in discussions on best practices grounded in the FAIR principles and Open Science. \n\n\n\nThis event is co-organized by the SciLifeLab Data Centre\, NBIS\, SciLifeLab Gothenburg\, the Swedish National Data Service (SND)\, and local support teams at the University of Gothenburg and Chalmers. \n\n\n\nWe warmly welcome life science researchers at all career stages—from master’s students to principal investigators—as well as data stewards\, technical staff\, and infrastructure experts based in Gothenburg. \n\n\n\nProgram\n\n\n\nMay 20 – Europa\, Conference Centre Wallenberg\, Medicinaregatan 20A \n\n\n\n10:00 – 10:30 “Fika” and registration \n\n\n\n10:30-12:00 Good Data Management Practices – available services and support\nGood data management practices are essential to increase the scientific and societal impact of your research. By adhering to the Open Science principles\, and by making your research more FAIR – findable\, accessible\, interoperable\, and reusable – you will increase the value of your research work. Doing this is easier than you might think\, and there is a lot of research support available to guide you. \n\n\n\nDuring this presentation you will get to know more about the different research support groups in Gothenburg (University of Gothenburg\, and Chalmers University)\, and the national research support groups (SciLifeLab Data Centre\, NBIS\, and SND)\, who are available to help you during all phases of your research project. \n\n\n\nThis Open Lecture is for everyone working in academia or healthcare\, who works with handling research data or would like to know more about this topic. \n\n\n\n\n12:00 – 17:00 The DDLS Precision Medicine Diagnostics (PMD) Minisymposium 2025 \nPioneering Data-Driven Precision Medicine and Diagnostics\, will take place at the same venue immediately following the Data Management Seminar. We warmly encourage you to take the opportunity to attend both events! \n\n\n\n\nMay 20 – Birgit Thilander\, Academicum\, Medicinaregatan 3 \n\n\n\n13:00 – 16:00 Network Event – Connecting Service Providers\nIf you want to join\, please reach out to us at gothenburg@scilifelab.se. \n\n\n\n\n\n\n\n\nMay 21 – Birgit Thilander\, Academicum\, Medicinaregatan 3 \n\n\n\n9:00-10:00 FAIR breakfast; An open forum for PhD students\, Postdocs and Master Students\n\n\nHere\, young scientists gather for breakfast and discussions on FAIR principles and best practices for research data management. \n\n\n\nFAIR stands for Findable\, Accessible\, Interoperable\, and Reusable — key principles that ensure data is well-organized and reusable. Understanding and applying good data management from the start of a project is not only a requirement for many funders and journals\, but also a valuable asset for researchers throughout their projects and beyond. \n\n\n\n\n\n\n\n\n\n\n\n\n10:15-12:00 Workshop 1 – Data submission to public repositories. \n\n\nBring your laptop! \n\n\n\nMaking the data underlying your research accessible to others—whether openly or with restrictions—is a fundamental part of a FAIR research process. When data are properly described and shared via a trusted data repository\, they can be re-used by you and others\, enabling collaboration and ensuring transparency and long-term preservation. Research data repositories allow data to be shared as open as possible\, as restricted as necessary\, fulfilling FAIR while meeting legal\, ethical\, or contractual requirements. \n\n\n\nThis workshop will give you the why\, where and how of data sharing via repository submission\, including a hands-on exercise. No prior knowledge is required in order to attend this workshop. \n\n\n\nLearning outcomes: \n\n\n\n\nKnow the benefits of data sharing\n\n\n\nKnow how to find a suitable repository for different types of data\n\n\n\nHave experience of a repository submission\n\n\n\n\n\n\n\n\n\n\n\n\n\n13:15-15:00 Workshop 2 – GDPR for life science research\nBring your laptop!  \n\n\n\n\n\nThe General Data Protection Regulation (GDPR) must be followed whenever personal data is processed. This workshop will introduce the fundamental concepts in the regulation and discuss what impact the regulation has on day-to-day research activities in the life sciences. \n\n\n\nLearning outcomes: \n\n\n\n\nHave a basic understanding of what GDPR is and what the purposes the regulation has\n\n\n\nHave a basic understanding of central concepts in GDPR (for example personal data\, special category (“sensitive”) data\, data processing\, data subject\, data controller\, data processor\, lawful grounds and data protection principles)\n\n\n\nUnderstand how GDPR is relevant to life science research (including for example how to prevent re-identification)\n\n\n\nProvide some examples of best practices for how to comply with GDPR\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\nRegistration\n\n\n\n\nLate registrations are still possible\, but we cannot guarantee meals for those registering after May 15\, 2025.
URL:https://www.scilifelab.se/event/data-management-in-life-science-2/
LOCATION:Birgit Thilander Lecture Hall\, Medicinaregatan 3\, Göteborg
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2021/03/data_life_cycle_9.png
ORGANIZER;CN="SciLifeLab Gothenburg":MAILTO:gothenburg@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250520T120000
DTEND;TZID=Europe/Stockholm:20250520T170000
DTSTAMP:20260501T195442
CREATED:20250221T095041Z
LAST-MODIFIED:20250514T144157Z
UID:10001493-1747742400-1747760400@www.scilifelab.se
SUMMARY:Pioneering Data-Driven Precision Medicine and Diagnostics
DESCRIPTION:DDLS Precision Medicine Diagnostics (PMD) Minisymposium 2025 \n\n\n\nWe are delighted to invite doctoral students\, postdoctoral researchers\, clinicians\, and professionals at all career stages to the DDLS PMD Minisymposium 2025 – an interdisciplinary event designed to showcase cutting-edge research and foster collaborative innovation in precision medicine and diagnostics. Join us in Gothenburg for an engaging and insightful experience. \n\n\n\nEvent Details: \n\n\n\nDate: May 20\, 2025 \n\n\n\nLocation: Hall Europa\, Wallenberg Conference Center\, Gothenburg \n\n\n\nCapacity: 100 participants \n\n\n\nAt this exclusive minisymposium\, you will have the opportunity to: \n\n\n\n\nEngage with Fellow Researchers: Hear from experts in data-driven life science and precision medicine through keynote presentations and visionary talks.\n\n\n\nParticipate in Interactive Sessions: Contribute to dynamic panel discussions addressing current challenges and future directions\, and experience rapid-fire talks by early-career researchers and postdoctoral fellows.\n\n\n\nShowcase and Discover Innovations: Explore groundbreaking research at our poster session that bridges the gap between clinical practice and translational science.\n\n\n\nNetwork and Collaborate: Connect with peers\, senior researchers\, and clinical experts to foster collaborative projects and exchange innovative ideas.\n\n\n\n\nThis event is tailored for professionals passionate about advancing precision medicine and diagnostics through data integration and interdisciplinary research. Whether you are leading groundbreaking projects or embarking on your scientific journey\, the DDLS PMD Minisymposium offers a platform to inspire\, innovate\, and shape the future of healthcare. \n\n\n\nRegister now to secure your place and join us in exploring new horizons in precision medicine and diagnostics. \n\n\n\nCollaboration and outreach flash talks \n\n\n\n2 min\, 1-2 slides max.\, do not present your research\, but present your needs or offers (are you looking for -or- can offer a specific kind of data or expertise\, are you looking for a tool to solve a specific -or- can you offer a tool to others and are looking for testers or users) \n\n\n\nRegistration\n\n\n\nSpeakers\n\n\n\n\nPaulo Czarnewski\, Precisium AI\n\n\n\nSara Hansson\, AstraZeneca\n\n\n\nLars Klareskog\, Senior Professor of Rheumatology\, Karolinska Institutet\n\n\n\nKimmo Kartasalo\, Assistant Professor\, DDLS Fellow\, Karolinska Institutet\n\n\n\nAntonio Lentini\, Assistant Professor\, DDLS Fellow\, Linköping University\n\n\n\nAbhishek Niroula\, Assistant Professor\, DDLS Fellow\, University of Gothenburg\n\n\n\nRichard Rosenquist Brandell\, Genomic Medicine Sweden\, Karolinska Institutet\n\n\n\n\nProgram\n\n\n\n12:00Registration & Poster set-upWallenberg Conference Center\, Gothenburg12:10Lunch Served in the restaurant Norden on the second floor13:00Scientific presentationsModerators: Annika Polster\, Qiaoli WangWelcome and Introduction to Precision Medicine and Diagnostics Research AreaJanne Lehtiö\, SciLifeLab/Karolinska Institutet13:10Use of Sweden’s national quality of care registers and affiliated biobanks for  large scale data-driven Precision Medicine researchLars Klareskog\, Karolinska Institutet13:35Identifying new markers of CH and predicting risk of hematologic malignanciesAbhishek Niroula\, SciLifeLab/University of Gothenburg13:50Foundation Models – A Panacea for Artificial Intelligence in Pathology?Kimmo Kartasalo\, SciLifeLab/Karolinska Institutet14:05Flash TalksModerators: Marcel Tabier and Muhammad Arif14:25Coffee Break with Matchmaking & Poster session15:10Scientific presentationsModerators: Avlant Nilsson\, Fulya Taylan15:10Harnessing atlas-level data for precision medicine applicationsPaulo Czarnewski\, Precisium AI15:35Transcriptional regulation of aneuploidyAntonio Lentini\, SciLifeLab/Linköping University16:00Implementing Precision Medicine in Drug DevelopmentSara Hansson\, Astra Zeneca16:30Precision Omics Initiative Sweden (PROMISE) – the design phaseRichard Rosenquist Brandell\, Genomic Medicine Sweden/Karolinska Institutet16:55Wrap-upJanne Lehtiö\, SciLifeLab/Karolinska Institutet
URL:https://www.scilifelab.se/event/pioneering-data-driven-precision-medicine-and-diagnostics/
LOCATION:Europasalen\, Konferenscentrum Wallenberg\, Gothenburg\, Medicinaregatan 20\, Göteborg\, 413 90\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2025/03/PM4_BG.png
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250526T090000
DTEND;TZID=Europe/Stockholm:20250526T170000
DTSTAMP:20260501T195442
CREATED:20250507T092724Z
LAST-MODIFIED:20250523T065343Z
UID:10001540-1748250000-1748278800@www.scilifelab.se
SUMMARY:SciLifeLab Uppsala Spring Mini-Symposium
DESCRIPTION:We’re thrilled to invite you to our first-ever SciLifeLab and DDLS Fellow/Alumni organized SciLifeLab Uppsala Spring Mini-Symposium in Navet\, BMC\, on the 26th of May. A full day dedicated to inspiring scientific talks\, meaningful interactions\, and collaborative discussions. \n\n\n\nJoin us as we explore how shared science can help strengthen connections across departments and universities. (Spots are limited to 90p.) \n\n\n\nPhD students and postdocs are especially encouraged to attend – it’s an excellent opportunity to expand your network and spark future collaborations! \n\n\n\nPhD/Postdoc\, you are welcome to present a poster. Reusing a recent poster is OK! \n\n\n\n \n\n\n\nWelcome! \n\n\n\nThe organizing team \n\n\n\nWojciech Michno\, Luisa Hugerth and Marcel Tarbier \n\n\n\nRegistration\n\n\n\nSchedule SciLifeLab Uppsala Spring Mini-Symposium v2Download
URL:https://www.scilifelab.se/event/scilifelab-uppsala-spring-mini-symposium/
LOCATION:Navet\, SciLifeLab Uppsala\, SciLifeLab Uppsala\, BMC C11\, Husargatan 3\, Uppsala\, 75237\, Sweden
CATEGORIES:Community
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2020/05/w2a5147-scaled.jpg
ORGANIZER;CN="SciLifeLab Uppsala Fellows":MAILTO:events@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20251006T120000
DTEND;TZID=Europe/Stockholm:20251007T160000
DTSTAMP:20260501T195442
CREATED:20250827T144903Z
LAST-MODIFIED:20250910T153530Z
UID:10001594-1759752000-1759852800@www.scilifelab.se
SUMMARY:DDLS Evolution and Biodiversity meeting
DESCRIPTION:The DDLS Evolution and Biodiversity research area is organizing a network event in Umeå\, lunch-to-lunch on October 6-7\, 2025. \n\n\n\n \n\n\n\nAim of the meeting: This event provides an excellent opportunity for the DDLS Evolution and Biodiversity research area to present ongoing and future work\, get to know one another\, and organize and strengthen the growing community. We will hear about and discuss DDLS infrastructure and research support services\, such as bioinformatics support. \n\n\n\nTarget Group: DDLS Fellows and their PhD\, Postdoc group members\, Research School Member + Main PI of the Evolution and Biodiversity research area\, EB Data Science Node representative. \n\n\n\n \n\n\n\n \n\n\n\nPractical Information and Registration\n\n\n\nA registration link to the meeting is provided in the invitation letter. For questions\, contact DDLS EB project coordinator Maria Hellman\, SLU. \n\n\n\nThe EB research area will cover accommodation and meals for all participants. \n\n\n\nParticipants must cover their own travel costs\, except for Fellows and Expert Group members\, for whom SLU will arrange travel. Therefore\, Fellows and Expert Group members need to provide travel information in the registration form so that Maria Hellman\, SLU can book the travel. \n\n\n\nTo ensure smooth handling of catering\, hotel reservations\, and program details\, please respect the registration deadline of September 12. \n\n\n\nWe look forward to seeing you in Umeå! \n\n\n\n \n\n\n\nOrganizing Committee \n\n\n\nMariana P Braga and José Cerca \n\n\n\nProgram\n\n\n\nProgramme_Umeå OctoberDownload
URL:https://www.scilifelab.se/event/ddls-evolution-and-biodiversity-meeting/
LOCATION:SLU\, Skogishuset Skogsmarksgränd 17\,  Umeå
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2025/08/BE2_BG-1.png
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BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20251016T090000
DTEND;TZID=Europe/Stockholm:20251016T170000
DTSTAMP:20260501T195442
CREATED:20250912T085114Z
LAST-MODIFIED:20251016T111054Z
UID:10001613-1760605200-1760634000@www.scilifelab.se
SUMMARY:Campus Solna Science Talks 2025
DESCRIPTION:Warmly welcome to the sixth Campus Solna Science Talk – a meeting for everyone in the community to learn more about ongoing research and activities at SciLifeLab’s Campus Solna\, which aims to bring the community together\, inspire exchange and new collaborations. \n\n\n\nResearch presentations will be given by group leaders and junior researchers (selected with consideration for balance in topics\, presenters’ career stages\, and affiliations) as part of four plenary sessions that will be mixed with panel discussions. We will end the day at Delta Campus Solna with poster sessions and pub. \n\n\n\nWe invite all Campus Solna research groups to be represented with at least 1 poster (and maximum 3). Furthermore\, we want to encourage all infrastructure units\, support functions (IT\, OO\, Site support) and committees (DEI\, Public Engagement\, CSI and the PhD&Postdoc Council) to partake with posters! \n\n\n\nSeats are limited\, register today to secure your spot! \n\n\n\nRegistration\n\n\n\n\n\n\n\nProgram\n8.45Welcoming and opening of symposiumPer Ljungdahl and Jan Ellenberg9.00Session I: Molecular profilingModerator: Erik Benson9.05Nanoscale detection and chemical targeting of DNA replication at its rootBennie Lemmens9.20Illuminating DNA-RNA connectomes in single cellsMagda Bienko9.35Proteome-wide biophysicsIlaria Piazza9.50Systematic Profiling of GPCR Autoantibodies in Human DiseaseMarcus Saarinen (Jochen Schwenk lab)10.10Coffee10.40Session II: Environment and EvolutionModerator: Christopher Wheat10.45Climate-Driven Trends in Adaptive Molt PhenologyTheodore Squires (Mafalda Sousa Ferreira lab)11.00Genomics of island lineages: A data-driven approachJose Cerca (DDLS Fellow)11.15How Development Makes Evolution More PredictableLisandro Milocco (DDLS fellow)11.35Putting CoARA and Research Assessment Reform into Practice: What It Means for SciLifeLab and Swedish ResearchChris Erdmann\, Annika Jenmalm Jensen\, Joanna Sendecka12.05Lunch12.50Session III: Membrane biology and molecular networksModerator: Rebecca Howard12.55Towards structure-guided design of mRNA lipid nanoparticlesWojciech Fijalkowski (Hanna Barriga lab)13.10Using biophysical properties of immune cells to find unifying biomarkers in long COVID and Chronic Fatigue Syndrome (ME/CFS)Agnes M. Koerfer (Erdinc Sezgin lab)13.25Combining cryo-EM and simulations to study membrane structureKaran Sharma (Milka Doktorova lab)13.40From Nodes to Distributed States: Tools to Decode Mammalian BehaviorStefanos Stagkourakis14.00Leg stretch and Coffee14.20Session IV: Machine learning and drug development Moderator: Brinton Seashore-Ludlow14.25PRIME: Investigating the role of PRostate Inflammation as a Mechanism for Cancer EvolutionAlexandra Rafeletou (Arian Lundberg lab)14.40Machine Learning methods for Cancer Research & Drug DiscoveryGolnaz Taheri14:55Navigation of vast chemical spaces for drug discoveryAndreas Luttens15.10Towards clinically reliable artificial intelligence for prostate cancer pathologyNita Mulliqi (Kimmo Kartasalo lab)15.30Panel: Evolution of SciLifeLab – 15 years! From Past into the FutureModerators; Rebecca Howard and Erdinc Sezgin16.00Concluding remarksPer Ljungdahl16.15Poster session and Pub at Campus Solna\n\n\n\n\nPosters\nThere will be voting for the Best Poster Award in two different categories; “Best Design and Presentation” and “Highest Scientific Impact”. The winners will be announced towards the end of the poster session. \n\n\n\n \n\n\n\nEach group/unit is welcome to bring up to 3 posters to the grand Poster Session that will follow the talks. Submit the poster titles in the registration form. Please coordinate within your research group/unit beforehand who should bring a poster. \n\n\n\nPlease add your building and floor to the poster\, so that everyone knows where your research is taking place. \n\n\n\nPoster size; A0 or smaller in portrait orientation \n\n\n\nPosterlista Science Talks 2025Download\n\n\n\n\nScientific committee\nInci Aksoylu \n\n\n\nHaris Babačić \n\n\n\nIskra Pollack \n\n\n\nAdnane Achour \n\n\n\nErik Benson \n\n\n\nPer Ljungdahl \n\n\n\nOrganising committe\n\n\n\nDisa Hammarlöf \n\n\n\nIsolde Palombo
URL:https://www.scilifelab.se/event/campus-solna-science-talks-2025/
LOCATION:Life City\, Solnavägen 3H\, Stockholm\, 113 64
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2022/09/Fasad-SciLifeLab-Solna-2022-2-1-scaled.jpeg
ORGANIZER;CN="SciLifeLab Event":MAILTO:events@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20251023T090000
DTEND;TZID=Europe/Stockholm:20251023T170000
DTSTAMP:20260501T195442
CREATED:20250513T084327Z
LAST-MODIFIED:20251022T092652Z
UID:10001548-1761210000-1761238800@www.scilifelab.se
SUMMARY:SciLifeLab Lund Day 2025
DESCRIPTION:Welcome to SciLifeLab Lund Day 2025!Join us for a dynamic day that brings together researchers\, technology platforms\, and strategic research initiatives to spotlight the powerful synergies driving life science forward in southern Sweden. \n\n\n\nThis year’s program will feature: \n\n\n\n\nOpportunity to interact with SciLifeLab cutting-edge technologies and national resources: Cellular & Molecular Imaging\, Integrated Structural Biology\, Clinical Genomics\, Genomics\, Metabolomics & Exposomics\, Proteomics\, Spatial Biology\, NBIS\, Training Hub\, DDLS program.\n\n\n\nA spotlight session on Lund University’s Strategic Research Areas (SFOs) and their collaboration with SciLifeLab platforms. SFOs confirmed: EXODIAB\, Stem Therapy\, Multipark and LUCC.\n\n\n\nA session highlighting alternative career paths in science: key roles in research infrastructure\, data science and scientific coordination\n\n\n\nTeaming up with LU innovation\, LU ventures and SmiLe Incubator\, we will explore how academic research can be translated into real-world innovations\n\n\n\n\nWhether you’re a student\, researcher or part of the broader life science community\, SciLifeLab Lund Day is your opportunity to connect\, explore\, and collaborate! \n\n\n\nDigital booklet & program\n\n\n\nPowered By EmbedPress
URL:https://www.scilifelab.se/event/scilifelab-lund-day-2025/
LOCATION:LUX Aula\, Helgonavägen 3\, Lund\, Sweden
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20251112T113000
DTEND;TZID=Europe/Stockholm:20251113T133000
DTSTAMP:20260501T195442
CREATED:20250320T121329Z
LAST-MODIFIED:20251112T164228Z
UID:10001509-1762947000-1763040600@www.scilifelab.se
SUMMARY:DDLS Annual Conference
DESCRIPTION:We have reached full capacityWe are currently at full capacity with a waiting list. If you are no longer able to attend\, please cancel your registration as soon as possible. This will allow us to accommodate others on the waiting list and ensure a smooth experience for all attendees. The Program in Hall B will be live-broadcast to SciLifeLab YouTube Talks & Training channel.  \n\n\n\n\n\n\n\n\nLive Stream\n\n\n\nLive Stream – November 13\n\n\n\n\n\nLive Stream – November 12\n\n\n\n\n\n\n\n\n\nThe Data-Driven Life Science (DDLS) program\, funded by the Knut and Alice Wallenberg Foundation (KAW)\, warmly welcomes you to the fourth DDLS Annual Conference\, taking place November 12–13\, 2025\, at Uppsala Konsert & Kongress (UKK). \n\n\n\nTarget Group: Anyone interested in data-driven life science is welcome to attend the Conference. You don´t need to be part of the SciLifeLab & Wallenberg National Program for Data-Driven Life Science\, even though the conference focuses on achievements and highlights program activities. \n\n\n\nThis two-day\, in-person event will highlight DDLS research and activities\, showcase new technologies and services available to researchers across Sweden\, and provide a forum for knowledge exchange and collaboration. Participants will have the opportunity to: \n\n\n\n\nShare and discuss research findings\n\n\n\nExplore ideas and insights across disciplines\n\n\n\nBuild networks for collaboration and career development\n\n\n\nGain perspectives beyond their own fields of expertise\n\n\n\n\nThe conference begins with a light lunch and registration on November 12 (11:30–12:30) and concludes with a networking lunch on November 13 (12:30–13:30). \n\n\n\nYouTube live-broadcast\n\n\n\nYouTube broadcast: The Program from Hall B will be live-broadcast on the YouTube SciLifeLab Talks & Training channel. Some speakers may share unpublished data that will be excluded from the live broadcast. You will find a YouTube embedded video player here on the event date. \n\n\n\nHosts & Moderators\n\n\n\nThe DDLS & SciLifeLab Director\, Jan Ellenberg\, will open the 2-day Conference. The DDLS Co-Directors\, Erik Kristansson (Chalmers) and Carolina Wählby (Uppsala University)\, will moderate and guide you through the Program.  \n\n\n\nConfirmed speakers\n\n\n\nSpeaker Abstracts_DDLS Annual Conference 2025_v1Download\n\n\n\nInvited speakers\n\n\n\nAnna Kreshuk\, EMBL\nTitle: Deep Learning for MicroscopyAffiliation: EMBL\, HeidelbergBio: Anna Kreshuk is a group leader and a Senior Scientist in the Cell Biology and Biophysics Unit at the European Molecular Biology Laboratory (EMBL) in Heidelberg\, Germany. She received a PhD in Computer Science from Heidelberg University in 2012. Following this\, she worked as a PostDoc in the Heidelberg Collaboratory for Image Processing (HCI). She joined EMBL in July 2018\, where her research group develops novel computer vision methods for the analysis of microscopy images. Beyond method development\, she is also committed to the democratisation of machine learning for the life science community\, contributing open source tools such as ilastik and PlantSeg. She is an ELLIS scholar and a scientific co-coordinator of the Horizon Europe project AI4Life.Abstract:  \n\n\n\n\nDaniel Tamarit\, Utrecht University\, the Netherlands\nTitle: The archaeal evolutionary origins of the eukaryotic cell \n\n\n\nAffiliation: Utrecht University\, the Netherlands \n\n\n\nBio: Daniel Tamarit is an Assistant professor at the Theoretical Biology and Bioinformatics (TBB) group\, specialized in comparative and evolutionary genomics. He obtained his PhD at Uppsala University by studying the evolution of host-associated bacteria\, and performed postdoctoral research at Wageningen University on major evolutionary transitions such as the origin of eukaryotes. Currently\, his team uses evolutionary genomics to investigate fundamental questions in archaeal and bacterial biology\, such as (i) what are the principles governing bacterial and archaeal genome architecture\, (ii) what can the genomes of novel microbial lineages tell us about basic evolutionary processes\, and (iii) what is the shape of the tree of life.  \n\n\n\nAbstract: The origin of eukaryotic cells was one of the most impactful transitions in evolution\, setting the basis for the emergence of multicellular organisms such as animals\, plants and fungi. Recent advances in genome-resolved metagenomics and phylogenomics have placed Asgard archaea at the heart of this transition\, revealing that eukaryotes originated from within this group. Expanded genomic sampling and robust evolutionary modeling identify a lineage of Heimdallarchaeia\, the Hodarchaeales\, as the closest known relatives of eukaryotes. Reconstructions of ancestral gene repertoires\, structure-based homology searches\, and targeted experiments suggest that the archaeal progenitor of eukaryotes already possessed an enriched set of genes involved in cytoskeletal dynamics\, membrane trafficking\, and other functions that contribute to cellular complexity. This talk will showcase how integrating computational approaches is transforming our understanding of early cellular evolution and revealing the deep archaeal roots of eukaryotic life. \n\n\n\n\nIngemar André\, Lund University\nTitle: Discovering patterns in the codon sequences of proteinsAffiliation: Center for Molecular Protein Science\, Lund UniversityBio: Prof. André has a PhD in Biophysical Chemistry from Lund University. He joined the University of Washington for postdoctoral work before returning to Lund University to start his research group in 2009. He studies protein self-assembly to understand the mechanism behind the formation of large assemblies using experimental and computational methods. Large assemblies are also designed using computational protein design methods and artificial intelligence. His group also works on the design of conformational changes in proteins. Another direction is the study of codon adaptation in organisms and its effect on co-translational folding. Questions related to how protein structure has evolved are also addressed in research by the group using computational and experimental methods.Abstract: The genetic code defines how amino acid sequences are encoded in mRNA. Due to redundancy\, this encoding is not unique\, with up to six different codons specifying the same amino acid. Historically\, synonymous mutations\, changes between codons for the same amino acid\, have been referred to as “silent.” However\, it is now clear that codon choice can have significant functional consequences. \n\n\n\nWe investigated the effect of synonymous codons on protein folding efficiency in E. coli using a high-throughput experimental assay. Our results reveal a link between protein topology and the proportion of nascent proteins that emerge from the ribosome correctly folded\, showing that even single synonymous substitutions can strongly influence co-translational protein folding. \n\n\n\nComplementary bioinformatic analyses establish a relationship between codon usage and protein secondary structure. Furthermore\, by training a large language model\, we developed a predictive framework that identifies positions of rare codons within coding sequences\, uncovers patterns explaining codon choice along the sequence\, and highlights mRNA stability as an important determinant of codon usage. \n\n\n\n\nJoakim Jaldén\, KTH\nTitle: Restless bandits and self-driving microscopesAffiliation: KTH Royal Institute of TechnologyBio: Joakim Jaldén has a M.Sc. in electrical engineering and a Ph.D. in telecommunications from the KTH. Since his employment as a tenure-track faculty at KTH in 2009\, he has increasingly devoted the group’s research efforts towards data analysis challenges in life science applications. Highlights include: The development of data association algorithms for single-cell tracking in time-lapse microscopy\, in collaboration with the Blau lab at Stanford; Mathematical models and algorithms for cytokine movement and antibody interaction in immunoassay\, which laid the foundation for patented technology behind the Mabtech AB analysis instruments for ELISpot and FluoroSpot\, and most recently\, multiplex assays; Algorithms and AI for long-read DNA basecalling from nanopore data\, in collaboration with SciLifeLab. He has been a full professor at KTH since 2017\, where he is now also deeply engaged in education.Abstract: The talk will focus on one result stemming from a first round of joint WASP-DDLS projects. The proposal envisioned the use of reinforcement learning as a tool to capture images of rare cell states in the context of automated microscopy. It will cover\, at a conceptual level\, the mathematical modeling decisions made to arrive at principled automation rules regarding what field of view to image and for how long\, ending with empirical illustrations of the practically realizable gains. \n\n\n\n\nMark Ravinet\, University of Oslo\, Norway\nTitle: The evolutionary history of a commensal species: lessons from adapting to the AnthropoceneAffiliation: Centre for Ecological and Evolutionary Synthesis\, University of OsloBio: Mark is an evolutionary biologist interested in understanding speciation and adaptation using a wide range of ecological and genomic techinques. He completed his PhD on local adaptation and speciation in three-spined sticklebacks at Queen’s University Belfast. Following that he was a JSPS Postdoctoral Fellow at the National Institute of Genetics\, Japan\, where he worked on the genomics of speciation in marine sticklebacks. He continued his work on the genomics of speciation and hybridisation\, this time on Passer sparrows\, at the University of Oslo as a Marie Curie fellow. It was here that his interest in understanding how human activity has shaped the evolution of other species began. He also has a strong interest in teaching genomics and bioinformatics to those beginning in the field. He has written several well-known resources and is co-author on the textbook Evolutionary Genetics: Concepts\, Analysis and Practice. He is now an Associate Professor at the University of Oslo and his primary research focus is on using Passer sparrows as a model system for understanding how human activity might have driven adaptation\, hybridisation and even potentially speciation in these charismatic little birds.Abstract: Human activity has altered the evolutionary trajectories and ecological circumstances of nearly every species on Earth. Commensal species are an extreme example to adaptation to anthropogenic niches\, benefitting from a close association with human activity. What can the evolution of a commensal life history tell us about how species adapt to environmental change driven by humans?House sparrows (Passer domesticus) are a hugely successful human-commensal species\, occurring on nearly every continent\, largely due to human introductions. Despite its close association human society\, surprisingly little is known about the evolutionary history of this species\, how it has evolved to fit a tight anthropogenic niche and the evolutionary consequences of its rapid global spread. Our work has focused on addressing this.With resequencing data from over 1200 Passer sparrows\, we first reconstructed the evolutionary history of the house sparrow. Our results suggest the species likely adapted to a human niche\, potentially more than once\, in Central Asia during the last 10\,000 years. We used phenotypic data including micro-CT 3D scanning to compare skull morphology between human commensal and wild sparrow populations. We identified clear divergence in skull morphology\, beak shape and an increased brain size in the commensal house sparrow populations. A major signature selective sweep in the house sparrow genome encompasses two major candidate genes; COL11A1 – which regulates craniofacial and skull development and AMY2A which is linked to adaptation to high-starch diets in humans and dogs. Functional analysis of COL11A1 confirms its role in skull development and we show evidence of copy number variation at AMY2A.Our next aim was to investigate the more recent global spread of the species. Native to Eurasia\, the house sparrow was introduced to the Americas\, Australasia and Sub-Saharan Africa in the 19th and 20th centuries. Using resequenced genome data from across this range\, we have reconstructed the population genomic signatures of these introductions. Our findings point to introductions from two divergent lineages of house sparrow to different parts of the world as well as the rapid evolution of genetic differentiation among introduced populations. We further investigated adaptation to climatic variation across the introduced ranges of the species in North America and Australia. We identify several candidate genes linked to growth\, thermoregulation and thermal tolerance\, suggesting introduced populations have adapted to new environmental conditions in less than 150 generations.Our work identifies phenotypes and genes involved in rapid adaptation in parallel to anthropogenic change across the native and introduced range of the house sparrow. With a global distribution spanning a wide range of climatic conditions and a close association with human society\, we suggest the house sparrow is an ideal model species for understanding adaptation in the Anthropocene. \n\n\n\n\nNicolai Birkbak\, Aarhus University\, Denmark\nTitle: T cell receptor diversity and immune health as a prognostic cancer biomarker \n\n\n\nAffiliation: Department of Clinical Medicine\, Aarhus University\, Denmark \n\n\n\nBio: Nicolai Birkbak is Professor of Cancer Evolution and Bioinformatics at Aarhus University and Aarhus University Hospital\, Denmark\, where he leads an independent research group. His research focuses on the bioinformatic analysis of high-dimensional data to understand how the immune system interacts with cancer. By integrating genomic\, transcriptomic\, single-cell\, and spatial data with medical imaging and liquid biopsy analyses\, including circulating tumor DNA and T-cell receptor sequencing\, his group develops holistic biomarkers that capture both tumor biology and host immune responses. \n\n\n\nNicolai trained in bioinformatics at the Technical University of Denmark and completed postdoctoral research at the Dana-Farber Cancer Institute and the Francis Crick Institute. At the Crick\, he contributed to the TRACERx lung cancer evolution project\, advancing understanding of how tumors evolve and evade immune surveillance. His work has also helped identify biomarkers of sensitivity to PARP inhibitors and elucidate mechanisms linking tumor evolution\, immune modulation\, and metastatic progression. \n\n\n\nThe overarching aim of his research is to translate these insights into precision medicine – enabling earlier detection\, improved prediction of treatment response\, and ultimately better outcomes for cancer patients. \n\n\n\nAbstract: The adaptive immune system not only protects us against pathogens but also plays a crucial role in defending against cancer. Among its key components\, T cells serve as central effectors in the endogenous anti-cancer response. Yet\, the clinical significance of their quantity\, diversity\, and dynamics remains insufficiently understood. \n\n\n\nWe investigated the prognostic value of the T cell receptor (TCR) repertoire in patients with bladder cancer. In advanced-stage disease\, we found that low pre-treatment peripheral TCR diversity was associated with poorer overall survival\, particularly when combined with low circulating T cell fractions. These low-diversity repertoires were dominated by hyperexpanded clones that persisted throughout treatment and were frequently directed against chronic viral infections such as cytomegalovirus. Longitudinal analyses further revealed treatment-associated declines in TCR diversity\, suggesting adverse effects on systemic immune health. \n\n\n\nTogether\, these findings highlight that immune health biomarkers such as TCR diversity may provide new opportunities for precision medicine approaches aimed at improving cancer treatment outcomes. \n\n\n\n \n\n\n\n\nVerónica Rendo\, Uppsala University\nTitle: From tumor maps to new therapies for pediatric brain cancer \n\n\n\nAffiliation: Department of Immunology\, Genetics and Pathology; Uppsala University \n\n\n\nBio: Veronica studied Biology at Simon Bolivar University in Venezuela\, and in 2013 moved to Sweden to pursue a PhD at Uppsala University. During this time\, she worked under the mentorship of Prof. Tobias Sjöblom and studied how genomic losses in cancer could be exploited for therapy. In 2019\, she moved to Boston (USA) to pursue a postdoc in Dr. Rameen Beroukhim’s lab at Dana-Farber Cancer Institute\, affiliated with Harvard Medical School and the Broad Institute of MIT and Harvard. Here\, Veronica focused on studying mechanisms of response and resistance associated with p53 reactivation in malignant brain tumors. She additionally continued her work on aneuploidy\, describing a new class of therapeutic targets as ‘toxic genes’ – genes whose high-levels of expression are detrimental to cancer cell fitness. In 2025\, Veronica became a Group Leader in Neuro-Oncology at the Department of Immunology\, Genetics and Pathology at Uppsala University.  Her lab investigates the genetic and adaptive mechanisms driving brain tumor evolution and therapy resistance\, with the goal of identifying new treatment targets. \n\n\n\nAbstract: In Sweden\, cancer remains the leading cause of disease-related death among children\, with brain tumors representing the most lethal subtype due to their limited treatment options and high relapse rates. One rare and aggressive subtype is atypical teratoid/rhabdoid tumors (AT/RT)\, an embryonal brain tumor which affects infants of under 2 years of age. The low incidence of AT/RT has hindered the establishment of a universal standard of care. Because these tumors primarily affect infants under two years of age\, treatment is largely restricted to intensive chemotherapy regimens designed to avoid the harmful effects of radiation therapy. However\, these high-dose regimens often yield only partial responses\, underscoring the urgent need to elucidate mechanisms of chemoresistance and to identify novel therapeutic strategies. We aim to uncover the transcriptional cell states and genetic vulnerabilities associated with chemotherapy-persistent AT/RT\, thereby revealing new targets that can enhance the efficacy of frontline treatments. To this end\, we first employ cellular barcoding to track cancer cell populations at single-cell resolution before and after exposure to individual chemotherapeutic agents used in clinical AT/RT protocols. This approach enables comparison of treatment regimens and identification of overlapping mechanisms of resistance. To further dissect these mechanisms\, we leverage CRISPR sensitizer screens to define targetable genes that potentiate chemotherapy response when depleted. Through our integrated transcriptomic and functional genomic analyses\, we ultimately aim to uncover novel therapeutic targets in chemotherapy-persistent AT/RT cells and accelerate the development of more effective treatment strategies. \n\n\n\n\n \n\n\n\n\nJenny Frössling\, Swedish Veterinary Agency\n\n\n\nKarl Ståhl\, Swedish Veterinary Agency\n\n\n\nErika Chenais\, Swedish Veterinary Agency\n\n\n\nStefan Widgren\, Swedish Veterinary Agency\n\n\n\nHyeyoung Kim\, Swedish Veterinary Agency\n\n\n\nAngela Fuentes Pardo\, SciLifeLab Data Centre with Henrik Lantz\, NBIS.\n\n\n\n\nDDLS Fellows\n\n\n\nAndrea Fossati\, KI\nTitel: Mapping infection at proteome scale: Toward mechanistic design of phage-based antimicrobialsAffiliation: Karolinska InstitutetAbstract: The rise of antimicrobial resistance (AMR) is outpacing the discovery of new antibiotics\, creating an urgent need for alternative strategies. Bacteriophages (phages) offer a promising route to targeted antimicrobials\, but their rational use is hindered by limited understanding of how they reprogram bacterial cells during infection. Our work addresses this by systematically mapping host–phage protein–protein interactions (PPIs) to uncover how viral proteins hijack essential bacterial complexes and redirect cellular physiology. Using next-generation interaction proteomics based on co-fractionation mass spectrometry (SEC-MS)\, we generated the first temporally resolved interactome of mycobacteriophage-infected cells. This approach captures native phage and host complexes without genetic tagging\, enabling functional inference of phage proteins directly from their physical context. We identify hundreds of infection-specific assemblies\, including viral inhibitors of essential bacterial machineries such as RNA polymerase and ribosomes. Structural modeling and comparative network analysis reveal conserved interface motifs and divergent strategies of complex remodeling across phage families. Integration of these data with CRISPRi perturbation and antibiotic susceptibility profiling provides a quantitative framework to predict infection outcomes and phage engineering. \n\n\n\n\nAvlant Nilsson\, KI\nTitle: Towards an interpretable deep learning model of cancerAffiliation: Karolinska InstitutetBio: Avlant Nilsson is a computational biologist and assistant professor in precision medicine at the department of Cell and Molecular Biology at Karolinska Institutet\, Stockholm. He holds a MSc (2009-2014)\, and a PhD (2014-2019) degree in biological engineering from Chalmers University of Technology\, where his thesis focused on the metabolism of growing cells\, including liver cancer.In his postdoctoral work at Massachusetts Institute of Technology (2019-2023)\, he developed artificial neural network models to simulate signal transduction in immune cells.His lab at SciLifeLab is developing techniques to simulate cellular processes in cancer\, aiming at identifying effective drug combinations\, predicting resistance mechanisms\, and understanding cell-cell interactions in the tumor microenvironment.Abstract: Deep learning offers new possibilities for understanding cancer using high throughput data. However\, it can be challenging to translate predictive models into causal description of cellular responses. Our lab develops biologically informed neural networks that integrate omics data with prior knowledge of signaling\, gene regulation\, and metabolism. By constraining the models to only include physical molecular interactions\, we are developing interpretable models for computer-aided design of personalized cancer medicine. With this approach we aim to answer questions such as why the same mutation yields different effects across cell types\, unexpected signaling outcomes of drugs\, and how genetic alterations may drive metabolic strategies. \n\n\n\n\nKelly Swarts\, SLU Umeå\nTitle: Climate adaptation in natural forest treesAffiliation: Umeå Plant Sciences Centre\, Swedish Agricultural UniversityAbstract: Conifers are ecologically dominant and economically important\, but are succumbing to drought\, disease\, early-budding and other challenges globally because the climate has changed so that mature trees are no longer adapted to their environment. If we could predict how individual tree genotypes would respond to different environments\, we could — given environmental predictions — plant the right tree in the right space. Standard agronomic approaches are effective but are less suitable for trees with long generation times and huge genetic diversity. We propose a system for quickly estimating adaptive responses for any forest tree. The key is tree increment core samples\, which simultaneously provide DNA for genotyping and annual growth measurements\, estimated from growth rings. For each genotype\, we thus have a life-time’s worth of experienced year-environments. This allows us to partition growth variation into generalizable environmental responses for years with historical weather or biotic information\, using quantitative\, genomic and ecological approaches to control for correlated responses. We focus on the economically and ecologically important conifer Norway spruce (Picea abies) to 1) develop models and infrastructure to understand the fraction of annual growth that can be attributed to genotype\, environment and genotype-by-environment interactions (GxE)\, 2) map the genetic basis of adaptive response using estimates for GxE as a response in genome-wide association studies (GWAS) and 3) predict genetic responses to novel environments. This approach enables estimation of the genetic basis of adaptive responses in any population\, providing the means to evaluate a tree’s performance in any modeled environment. As environments shift under climate change\, this provides a powerful tool to select parents for healthy\, resilient forests. \n\n\n\n\nLuisa W Hugerth\, Uppsala University\nTitle: Bridging the last mile: microbiome-enhanced forecasting of pregnancy complications \n\n\n\nAffiliation: Uppsala University \n\n\n\nBio: Luisa W. Hugerth trained both in biomedicine at Karolinska and in microbial ecology at KTH before combining these two interests by joining the Centre for Translatinal Microbiome Research. Since 2022 she is a DDLS fellow based at UU\, where she leads the Human Microbial Ecology Lab\, studying the microbiome as a modifiable risk factor in women’s health. \n\n\n\nAbstract: Patients know a lot about themselves and their health\, and asking the right questions will remain the key main strategy for taking clinical decisions. Still\, there is always uncertainty in how an individual will react to an intervention. Leveraging large population-based pregnancy cohorts and combining questionnaires\, registries\, fecal and vaginal microbiome\, we achieve improved accuracy in pregnancy complication predictions\, including preterm birth\, large-for-gestational age and small-for-gestational age infants. \n\n\n\n\nNovelty\, Excellence\, Synergy\, and Teams Projects (NEST)\n\n\n\n\nTIMED: Time-Resolved Imaging and Multi-Channel Evaluation of Cellular Dynamics. Researchers: Rocio Mercado (CHT)\, Ola Spjuth (UU)\, Ashkan Panahi (CTH)\, Prashant Singh (UU) and Brinton Seashore-Ludlow (KI)\n\n\n\nLearning 3D genome dynamics from heterogeneous data. Researchers: Thomas Schön (UU)\, Johan Elf (UU) and Magda Bienko (KI)\n\n\n\nMultimodal AI-based Precision Diagnostics and Decision Support for Breast Cancer (AID4BC). Researchers: Claes Lundström (LiU)\, Mattias Rantalainen (KI)\, Sophia Zackrisson (LU) and Dave Zachariah (UU)\n\n\n\n\n \n\n\n\nResearch Data Community Projects (RDCP)\n\n\n\n\nMicroscopy Foundation Model & AI-Ready Data Hub for Smart Microscopy\, Wei Ouyang\, KTH. Presenting: Hanzhao Zhang\, KTH\n\n\n\nTissUUmaps Research Data Community Project\, Carolina Wählby\, Uppsala University\n\n\n\nCRITICAL MICROBES – Comprehensive Research on InfecTIons Complications Across the Lifespan – MICROBiology Epidemiology in Sweden\, Sara Kalucza\, Umeå University\n\n\n\nSwedish Metabarcoding Network (SMN)\, Tobias Andermann\, Uppsala University\n\n\n\n\n \n\n\n\nThe Precision Medicine and Diagnostics and Cell and Molecular Biology parallel sessions will include selected short talks from submitted abstracts.   \n\n\n\n\nRegistration\n\n\n\nThe Poster registration is closed! If you want to update or cancel your poster\, please contact events@scilifelab.se. \n\n\n\nWe have reached full capacityWe are currently at full capacity with a waiting list. If you are no longer able to attend\, please cancel your registration as soon as possible. This will allow us to accommodate others on the waiting list and ensure a smooth experience for all attendees. The Program in Hall B will be live-broadcast to SciLifeLab YouTube Talks & Training channel.  \n\n\n\nRegister for the Waiting list\n\n\n\nRegistration and Poster Submission Deadline \n\n\n\nWe have 320 seats. The registration and poster submission close on October 21st. If you register after October 21st\, you will need to write your name on a name tag at the on-site registration. Unfortunately\, we cannot accommodate allergies or dietary preferences for those who register after the deadline. \n\n\n\nWaiting List \n\n\n\nTo avoid empty seats\, registration will remain open until the event begins. If we reach full capacity\, a waiting list will be activated. Sign up for the waiting list\, and you will automatically receive an email when a spot becomes available. You must accept to secure the spot. If you decline\, the offer will go to the next person on the waiting list. \n\n\n\nCancellation \n\n\n\nTo minimize empty seats and especially food waste\, you must cancel your registration if you are unable to attend the conference. If a waiting list is activated\, your spot will go to someone else. \n\n\n\n\n\n\n\n\nPoster session\n\n\n\nPoster Abstracts\n\n\n\nPostersA3Download\n\n\n\nPoster Sessions\, November 12 \n\n\n\n14:00 15:00 Hall C: Poster session I (odd numbers) \n\n\n\n16:30 17:30 Hall C: Poster session II (even numbers) \n\n\n\nInstructions: \n\n\n\n1. Find your number in the POSTER LIST attached. \n\n\n\n2. Hang your poster on the board indicating your number\, starting at 11:00 in Hall C\, to increase visibility during lunch on Day 1. \n\n\n\n3. Please stand by your poster during your assigned session (odd or even numbers). Leave it displayed throughout the conference so everyone can see it. \n\n\n\nThe poster board area measures 103×143 cm. Bring a poster size you prefer. \n\n\n\nDDLS Annual Poster Prize\n\n\n\nThe DDLS Poster Prize encourages PhD students and postdoctoral researchers to present high-quality work in data-driven life science. The award\, decided by a Scientific Committee jury\, includes a certificate and a travel grant of up to 5\,000 SEK. Conditions apply. If you present a poster\, please ensure you stay for the Poster Award Ceremony at 12:00 by the end of the Conference. \n\n\n\n \n\n\n\nMap over UKK and the poster session (Hall C)\n\n\n\nMap UKK Floor 3 with poster session in Hall CDownload\n\n\n\nProgram\n\n\n\nThe Plenary Program (excluding the Parallel Sessions) will be live-broadcast on the SciLifeLab YouTube channel. There might be some speakers sharing unpublished data that will be excluded from the live-broadcast. \n\n\n\nProgram DDLS Annual Conference 2025_v13Download\n\n\n\n\n\n\n\nDDLS Annual Conference 2025 workshops\n\n\n\nDuring the second day of the DDLS Annual Conference\, participants will have an opportunity to attend one of three workshops. The workshops are designed for researchers in data-driven life sciences at all career stages. \n\n\n\nEach workshop has a limited number of seats on a first-come\, first-served basis. Those registered after the limit is reached will be placed on a waiting list. The workshops will take place in various rooms of the main conference venue\, UKK. All workshops start at 13:30 but can end at various times. Coffee/tea and fika will be served during the workshops. \n\n\n\nFeel free to email datacentre@scilifelab.se with any questions about workshop 1 and 2 and traininghub@scilifelab.se for workshop 3. \n\n\n\nRead more about Workshops\n\n\n\nWorkshop 1. Automating life science & biomedical tasks with LLMs and beyond: practical guide \n\n\n\nWorkshop 2. Open Source Software for Research – Sharing Code and Software the Right Way \n\n\n\nWorkshop 3. Development of a Mastery Rubric for Data Driven Life Scientists \n\n\n\nPractical information\n\n\n\nTravel to Uppsala\n\n\n\nThe Venue\, Uppsala Konsert & Kongress (UKK) is next to the Train station. MAP here! Travel centres\, bus stops\, parking and hotels are all located within walking distance from Uppsala Konsert & Kongress. Several train and bus lines connect Uppsala to the rest of the country and the region\, and Arlanda Airport is only 18 minutes by train\, Stockholm Central station is approx. 30 minutes by train. \n\n\n\nUppland public transport (UL) timetables and information: www.ul.seStockholm public transport (SL) timetables and information: www.sl.se SJ timestables and information: www.sj.se \n\n\n\nGood to know\, travelling to Uppsala. \n\n\n\nParking\n\n\n\nThe nearest parking garage is Centralgaraget. There is also parking available in Kvarnens parking garage\, Svava\, S:t Per Gallerians garage\, Österplan\, and several other locations in central Uppsala. For more information about parking in the area\, please visit Uppsala Parkering. \n\n\n\nHotels in Uppsala\n\n\n\nFind suggestions for accommodation in Uppsala here
URL:https://www.scilifelab.se/event/ddls-annual-conference-2025/
LOCATION:Uppsala Konsert & Kongress (UKK)\, Vaksala torg 1\, Uppsala\, 753 31\, Sweden
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20251113T133000
DTEND;TZID=Europe/Stockholm:20251113T160000
DTSTAMP:20260501T195442
CREATED:20250903T073116Z
LAST-MODIFIED:20251105T121833Z
UID:10001595-1763040600-1763049600@www.scilifelab.se
SUMMARY:DDLS Annual Conference 2025 workshops
DESCRIPTION:During the second day of the  DDLS Annual Conference 2025 held at Uppsala Kongress och Konsert (UKK) participants will have an opportunity to attend one of the workshops. The workshops are directed at researchers in data-driven life science in all career stages. \n\n\n\nPlease note that each workshop has a limited number of seats\, on the first come first served basis. Those registered after the limit is reached will be placed on the waiting list. The workshops will take place in various rooms of the main venue of the conference –UKK All workshops start at 13:30 but end at various times. Coffee/tea and fika will be served during the workshops. \n\n\n\nFeel free to email datacentre@scilifelab.se with any questions about workshop 1 and 2 and traininghub@scilifelab.se for workshop 3. \n\n\n\nWorkshops\n\n\n\nWorkshop 1. Automating life science & biomedical tasks with LLMs and beyond: practical guide\n\n\n\nHeld by: Ola Spjuth (UU\, SciLifeLab AI Lead) and AI data engineers  Mahbub Ul Alam and Johan Alfredéen at SciLifeLab Data Centre \n\n\n\nWhere and when: November 13\, 2025 at 13:30-16:00\, room K1 (36 seats) UKK  \n\n\n\n\nRegistration\n\n\n\n\nDescription:  We will explore how artificial intelligence (AI) can help make your research more productive. You will see how AI agents can help youcreate new\, testable ideas. We will introduce modern agentic AI tools that can automatically handle many research tasks. These tools use powerful large language models (LLMs) to plan and perform complex jobs. You will learn how to apply them using several available cloudplatforms and open-source tools. The main goal is to show you how to use AI to speed up your work and discover new research questions. \n\n\n\nWorkshop participants can then choose from a number of hands-on exercises that they can complete on their own laptops. We will be available to help and answer questions.    \n\n\n\nWorkshop 2. Open Source Software for Research – Sharing Code and Software the Right Way\n\n\n\nHeld by: Chris Erdmann (Head of Open Science\, SciLifeLab) and coordinators Alma Nilsson\, Suné Joubert and Parul Tewatia SciLifeLab Data Centre \n\n\n\nWhere and when: November 13\, 2025 at 13:30-16:00\, room K2 (20 seats) UKK \n\n\n\n\nRegistration\n\n\n\n\nDescription: Research depends on software\, but without open and FAIR practices\, reproducibility and reuse are limited. Open-source software means code that is not only available but also licensed for free use\, modification\, and sharing. This workshop provides an overview of open science policy related to software\, and introduces the Open Science Software Checklist \, showing how to apply it to make research code adhere to open science policies and guidelines. Speaker at the workshop include Malin Sandström from the Swedish Research Council (Vetenskapsrådet) and researchers from the SciLifeLab research community\, as well as coordinators and data stewards from SciLifeLab Data Centre. \n\n\n\nParticipants should bring their own laptop and have a GitHub account. Having Visual Studio Code installed and connected to one’s GitHub is helpful but not required. \n\n\n\nWorkshop 3. Development of a Mastery Rubric for Data Driven Life Scientists\n\n\n\nHeld by: Jill Jaworski\, SciLifeLab Training Hub \n\n\n\nWhere and when: November 13\, 2025 at 13:30-16:00\, room K3+K4 (90 seats) UKK \n\n\n\n\nRegistration\n\n\n\n\nDescription: What is a data-driven life scientist? What knowledge\, skills and abilities do these individuals have and what core competencies do they share within their respective expertise-areas? What distinct characteristics set them apart from other life-scientists? \n\n\n\nIn this interactive workshop\, through facilitated discussions and collaborative exercises\, we will come to a shared understanding of what is required in this profession. We will create a Rubric that outlines the different knowledge\, skill and ability areas of data-driven life scientists and map these competencies against beginner\, intermediate and mastery levels. \n\n\n\nIn this way\, we will help define the scope of data-driven life scientists and demonstrate what is needed for them to progress along learning paths from beginners to masters in their subject areas\, thereby helping them understand how and where they can develop professionally. Amid quickly changing scientific landscapes\, complex and pressing real-world issues\, and growing mistrust in science\, it is important to create a shared framework for what we mean when we describe data-driven life scientists\, which will help bring credibility to the profession\, trust\, and clear guidance on how to professionally develop. \n\n\n\nParticipants will need to bring a laptop or tablet to this workshop to be able to fully participate.
URL:https://www.scilifelab.se/event/ddls-annual-conference-2025-workshops/
LOCATION:Uppsala Konsert & Kongress\, Vaksala torg 1\, Uppsala\, 75331\, Sweden
CATEGORIES:Event
ORGANIZER;CN="SciLifeLab Data Centre":MAILTO:datacentre@scilifelab.se
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BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20251201T151500
DTEND;TZID=Europe/Stockholm:20251201T161500
DTSTAMP:20260501T195442
CREATED:20251119T104324Z
LAST-MODIFIED:20251119T104326Z
UID:10001668-1764602100-1764605700@www.scilifelab.se
SUMMARY:[The Svedberg seminar] - Genome organisation and patterns of molecular evolution
DESCRIPTION:Jennifer James \n\n\n\nAssistant Professor DDLS Fellow \n\n\n\n \n\n\n\n\n\n\n\nBio\n\n\n\nDr. Jennifer James did her PhD in population genetics with Adam Eyre-Walker at the University of Sussex. After a postdoctoral position at the University of Cambridge she moved to the US\, where she worked as a postdoctoral researcher with Joanna Masel at the University of Arizona\, which introduced her to the world of proteomics. She next moved to Uppsala and worked as a postdoctoral research fellow with Martin Lascoux prior to becoming a DDLS fellow and starting her own new research group in Molecular Evolution. Her group conducts research on patterns of molecular evolution both at the genome and proteome level\, with a focus on understanding mutational robustness. \n\n\n\n \n\n\n\n \n\n\n\nGenome organisation and patterns of molecular evolution\n\n\n\n \n\n\n\nIn my group\, we try to understand patterns of phenotypic evolution at the proteome level\, and molecular evolution across the genome. Key to this question is understanding how the genome is structured and organised. For example\, how pleiotropic are the effects of genes on average\, and how complex are gene networks? To give one case\, if pleiotropy is universal\, such that all genes affect all traits\, we expect all new mutations to have the same effect on fitness. However\, the extent of pleiotropy in real biological systems remains debated. In this seminar I will discuss our \n\n\n\n \n\n\n\nHost: Siv Andersson siv.andersson@icm.uu.se\, UU
URL:https://www.scilifelab.se/event/the-svedberg-seminar-jennifer-james/
LOCATION:BMC Room C8:301\, Husargatan 3\, Uppsala\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2022/02/Picture1-The-Svedberg.png
ORGANIZER;CN="The Svedberg Seminar Series":MAILTO:thesvedberg@scilifelab.uu.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20260212T153000
DTEND;TZID=Europe/Stockholm:20260212T173000
DTSTAMP:20260501T195442
CREATED:20260115T091644Z
LAST-MODIFIED:20260205T144307Z
UID:10001719-1770910200-1770917400@www.scilifelab.se
SUMMARY:Industry and Academy Matchmaking for Joint DDLS Projects 2026
DESCRIPTION:To further support networking and the formation of collaborative projects within the SciLifeLab & Wallenberg National Program for Data-Driven Life Science (DDLS)\, a matchmaking event between industry and academia is organized by SwedenBIO and DDLS Research School at Life City\, Hagastaden (Stockholm) 15:30-17:30 on Thursday 12 February. This “after work”-style event will contain information about the DDLS Research School\, current and upcoming PhD and postdoc project calls\,  brief pitches from successful ongoing joint projects\, mingle\, drinks\, and snacks. \n\n\n\nProgram\n\n\n\n \n\n\n\nRegistration 15:15Event start 15:30 \n\n\n\n\nWelcome and opening words\n\n\n\nIntroductions DDLS Research School PhD students and postdocs\n\n\n\nIndustry- Academy project pitches:\n\nSofia Larsson\, Readily Diagnostics\n\n\n\nIsac Stark\, Antaros Medical\n\n\n\n\n\nIndustry presentations\n\n\n\n\nMingle until 17:30              \n\n\n\n                \n\n\n\n \n\n\n\n \n\n\n\nRegister here\n\n\n\nDeadline for registration: 29 January 12:00 \n\n\n\nWELCOME!
URL:https://www.scilifelab.se/event/industry-and-academy-matchmaking-for-joint-ddls-projects-2026/
LOCATION:Life City\, Solnavägen 3H\, Stockholm\, 113 64
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2026/01/34532806cd22435bd0d1c12c485b59b164a9125b454190bcc4072e7ddbe456d2-scaled.png
ORGANIZER;CN="Data-Driven Life Science @ SciLifeLab":MAILTO:ddls@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20260218T130000
DTEND;TZID=Europe/Stockholm:20260218T173000
DTSTAMP:20260501T195442
CREATED:20260117T140103Z
LAST-MODIFIED:20260217T102443Z
UID:10001724-1771419600-1771435800@www.scilifelab.se
SUMMARY:DDLS Evolution & Biodiversity - Planetary Biology meeting
DESCRIPTION:Welcome to this joint meeting between DDLS Evolution & Biodiversity and SciLifeLab Planetary Biology to discuss shared visions and goals\, and potential initiatives in collaboration. \n\n\n\nAgenda \n\n\n\n13:00–13:05 | Welcome & objectives \n\n\n\n13:05–13:40 | Presentation round  \n\n\n\n13:40–13:55 | DDLS EB: Vision\, goals & ongoing activities. Sara Hallin  \n\n\n\n13:55–14:10 | Planetary Biology: Vision\, goals & ongoing activities. Olga Vinnere Pettersson \n\n\n\n14:10–14:20 | The Data Science Node in Evolution and Biodiversity. Henrik Lantz \n\n\n\n14:20–14:30 | Joint reflections & clarifying common objectives \n\n\n\n14:30–15:00 | Coffee break  \n\n\n\n15:00–15:30 | Looking ahead: 2026 planning \n\n\n\n15:30–16:35 | Strengthening collaboration & joint initiatives \n\n\n\n16:35–17:00 | Next steps & wrap-up \n\n\n\n18:30 – | Dinner at Frans Bistro (Dragarbrunnsgatan)
URL:https://www.scilifelab.se/event/ddls-evolution-biodiversity-planetary-biology-meeting-2/
LOCATION:BMC Trippelrummet\, Husargatan 3\, entrance C11\, Uppsala\, Sweden
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BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20260309T093000
DTEND;TZID=Europe/Stockholm:20260310T120000
DTSTAMP:20260501T195442
CREATED:20260209T113147Z
LAST-MODIFIED:20260223T125827Z
UID:10001752-1773048600-1773144000@www.scilifelab.se
SUMMARY:Phages: From Basic Discoveries to Clinical Applications
DESCRIPTION:The symposium “Phages: From Basic Discoveries to Clinical Applications” brings together researchers\, clinicians and technology developers for two days of focused discussions on how bacteriophages can be advanced as precision antimicrobials. The event aims to bridge traditionally separate communities by (1) engaging clinicians to highlight unmet medical needs and clinical challenges\, (2) introducing the SciLifeLab to these problems and (3) showcasing cutting-edge national and international phage research spanning molecular mechanisms\, synthetic engineering and therapeutic development. \n\n\n\nDate: 9th March 9.30-16 / 10th March 9.30- 12:00 \n\n\n\nVenue: Atrium\, Ground floor in Wargentinhuset\, Nobels väg 12B\, 171 65 Solna. \n\n\n\nOrganizer and main contact for questions: Andrea Fossati\, DDLS Fellow\, KI. \n\n\n\nRegistration\n\n\n\nRegister here\n\n\n\n\n\n\n\nProgram\n\n\n\nphages_2026_v2Download
URL:https://www.scilifelab.se/event/phages-from-basic-discoveries-to-clinical-applications/
LOCATION:Atrium KI Campus\, Nobels väg 12B\, 171 65 Solna
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20260311T120000
DTEND;TZID=Europe/Stockholm:20260312T130000
DTSTAMP:20260501T195442
CREATED:20251021T074531Z
LAST-MODIFIED:20260312T153025Z
UID:10001639-1773230400-1773320400@www.scilifelab.se
SUMMARY:Artificial intelligence and data-driven approaches for addressing the global challenge of antibiotic resistance
DESCRIPTION:Join the Data-driven Epidemiology and Biology of Infection research area (DDLS\, Sweden) and the Fleming Initiative (UK) for an inspiring lunch-to-lunch meeting filled with science\, networking\, and discussions. Primarily for the participants from Sweden and the UK. Others may inquire about availability. Contact information for Saba Parween is found under the headline Registration. \n\n\n\nInfections caused by antibiotic-resistant bacteria are increasing\, leading to millions of deaths and rising societal costs. Eighty years after Alexander Fleming was awarded the Nobel Prize for his discovery of penicillin\, we are still confronted with the urgent challenge of diminishing antibiotic effectiveness. This symposium will explore how artificial intelligence and other data-driven approaches can provide new strategies to combat the growing threat of antibiotic resistance. \n\n\n\nThe DDLS research area symposia series aims to engage and promote the national scientific community around the DDLS research themes. The symposia bring together researchers\, industry\, and healthcare to stimulate collaboration and push the frontiers of data-driven life science. The events are open for everyone interested in data-driven research to participate. \n\n\n\nThis event is jointly organized by the Data-Driven Life Science program (DDLS\, Sweden)\, The Fleming Initiative\, a partnership between Imperial College London and Imperial College Healthcare NHS Trust\, and is hosted by SciLifeLab and the Knut and Alice Wallenberg Foundation and supported by UK Science and Technology Network. \n\n\n\nRead more about the Data-Driven Life Science Program \n\n\n\nRead more about the Fleming Initiative.  \n\n\n\nDate: 11-12 March 2026Time: lunch-to-lunchVenue: Norrlands Nation Fest and Conference\, Västra Ågatan 14\, 753 09 Uppsala \n\n\n\nConference Dinner at Norrlands Nation after the Poster session.  \n\n\n\nRegistration\n\n\n\nRegistration has closed! To secure a seat due to a late cancellation\, please email events@SciLifeLab.se.  \n\n\n\nSaba Parween saba.parween@umu.se \n\n\n\nProgram\n\n\n\nFinal3_Program_DDLS_EBIDownload\n\n\n\nSessions\n\n\n\nData-Driven Insights into Infection Biology \n\n\n\nApplications of Diagnostic and Surveillance Data \n\n\n\nNovel Data Approaches for Diagnostics and Patient-Level Care \n\n\n\nResearch Translation and Implementation of AI in Healthcare \n\n\n\nConfirmed Speakers\n\n\n\n\nLaura Carroll\, Umeå University\, Sweden\n\n\n\nDavid Aanensen\, University of Oxford\,UK\n\n\n\nCarolina Wählby\, Uppsala University\, Sweden\n\n\n\nDaudi Jjingo\, Makerere University\, Kampala\, Uganda\n\n\n\nDamien Ming\, Fleming Initiative\, UK\n\n\n\nDavid Lund\, Chalmers University of Technology\, Sweden\n\n\n\nSuzanne Ruhe-van der Weff\, Karolinska Institutet\, Sweden\n\n\n\nNina Zhu\, Imperial College London\, UK\n\n\n\nSanjiv Sharma\, University of Liverpool\, UK\n\n\n\nChristian Giske\, Karolinska Institutet\, Sweden\n\n\n\nAnna Johnning\, Chalmers University of Technology\, Sweden\n\n\n\nNick Moser\, Google DeepMind\, hosted at Fleming Initiative and Imperial College London\, UK\n\n\n\nJesus Rodriguez-Manzano\, Imperial College London\, UK\n\n\n\nDavid Fange\, Uppsala University\, Sweden \n\n\n\nJohan Bengtsson-Palme\, Chalmers University of Technology\, Sweden\n\n\n\n\nSpeaker and poster abstracts\n\n\n\nDownload the speaker and poster abstract book \n\n\n\nOrganizing Committee\n\n\n\nErik Kristiansson\, Chalmers University of Technology/University of GothenburgAlison Holmes\, Fleming InitiativeLaura Carroll\, Umeå UniversityDamien Ming\, Fleming InitiativeJohan Elf\, Uppsala UniversityAmish Acharya\, Fleming InitiativeUK Science and Technology Network \n\n\n\nQuestions can be answered by the Organizing Committee or events@scilifelab.se \n\n\n\n\n\n\n\n\nManage your registration – Improved event experience: Introducing the Lyyti Event app \n\n\n\nThis event uses Lyyti for registration. Lyyti has launched the Lyyti Event app\, where you can find your Lyyti registration\, confirmation\, and ticket. You can also edit your information until the registration deadline. \n\n\n\nTo get started\, download “Lyyti Event” and sign up with the same email address you normally use for event registrations. The app only displays events associated with the email address used to create your account. \n\n\n\nIf you register for events using multiple email addresses\, your registrations will be split across separate app accounts. For the best experience\, please use one consistent email address for all Lyyti registrations. We hope this new functionality makes it easier for you to manage your participation.
URL:https://www.scilifelab.se/event/artificial-intelligence-and-data-driven-approaches-for-addressing-the-global-challenge-of-antibiotic-resistance/
LOCATION:Norrlands Nation Fest and Conference
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2025/10/DDLS_EBI_promo_clean.png
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