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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
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DTSTART;TZID=Europe/Stockholm:20260311T120000
DTEND;TZID=Europe/Stockholm:20260312T130000
DTSTAMP:20260430T191058
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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
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DTSTART;TZID=Europe/Stockholm:20260317T140000
DTEND;TZID=Europe/Stockholm:20260320T150000
DTSTAMP:20260430T191058
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SUMMARY:DDLS Research School Annual Meeting
DESCRIPTION:The DDLS Research School Annual Meeting 2026 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 (17-20 March)\, while their supervisors are invited to participate 17-18 March (afternoon-to-lunch) \n\n\n\nMeeting Highlights \n\n\n\nAll PhD students are encouraged to present a poster\, and all posters will be accepted. Senior PhD students (year 2 and later) are encouraged to also sign up for an oral presentation. \n\n\n\nPreliminary Program\n\n\n\nTuesday 17/3 \n\n\n\n14:00-15:00 Registration and coffee \n\n\n\n15:00-16:00 Welcome and Research School information \n\n\n\n16:15-18:30 PhD students: Social activity \n\n\n\n16:00-18:00 PIs: meeting with Research School directors \n\n\n\n19:00- Conference dinner \n\n\n\nWednesday 18/3 \n\n\n\n8:30-12:30 Scientific presentations by PhD students \n\n\n\n12:30 Lunch \n\n\n\n13:30-14:30 Student council meeting (Thanadol Sutantiwanichkul\, Olof Nordenström) \n\n\n\n14:30-15:30 Career workshop: Life After the PhD: Industry Insights for DDLS Researchers\, by SwedenBIO (Marjo Puumalainen) \n\n\n\n16:00-18:00 Poster session with drinks \n\n\n\n19:00 Dinner \n\n\n\nThursday 19/3 \n\n\n\n9:30-17:15: 1st year course – Open Science in the Swedish context (Ineke Luijten) \n\n\n\n9:00-17:00 2nd year course – Ethical\, legal and social implications of AI (Heidi Howard) \n\n\n\n12:30 Lunch \n\n\n\n19:30 Dinner \n\n\n\nFriday 20/3 \n\n\n\n8:15-10:15 Lecture and workshop: Exploring the principles and practice of AI (Thomas Schön) \n\n\n\n10:30-11:30 Introduction to 2026 DDLS RS courses \n\n\n\n11:30-12:15 Group work: Future courses in DDLS RS  \n\n\n\n12:30 Lunch \n\n\n\nBus transfer\n\n\n\nDetails regarding bus transfer will be sent by email to those who have signed up for bus in their registration
URL:https://www.scilifelab.se/event/ddls-research-school-annual-meeting-2/
LOCATION:Skogshem & Wijk\, Hustegavägen 1\, Lidingö\, 181 24
CATEGORIES:Community
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DTSTART;TZID=Europe/Stockholm:20260320T100000
DTEND;TZID=Europe/Stockholm:20260320T110000
DTSTAMP:20260430T191058
CREATED:20260305T102544Z
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SUMMARY:Understanding the Molecular Mechanism of Progressive Diseases: An Integrative Omics Network Approach
DESCRIPTION:Muhammad Arif \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\nWhen: March 20\, 10:00-11:00 \n\n\n\nWhere:  Zoom http://meet.nbis.se/ainw \n\n\n\nSpeaker: Muhammad ArifDDLS fellow Precision Medicine and Diagnostics\, University of GothenburgAbstract \n\n\n\nMany common diseases\, including cardiovascular and metabolic disorders\, develop gradually through complex biological changes long before symptoms appear. This work presents a data-driven\, systems-level approach that integrates large-scale omics data with network analysis to uncover how these diseases progress. By examining interactions across thousands of genes and pathways simultaneously\, the framework identifies key molecular drivers of aging and peripheral artery disease\, reveals early warning signals\, and highlights potential therapeutic targets. This integrative strategy illustrates how combining biology with computational approaches can accelerate discovery and advance earlier\, more personalized medical care. \n\n\n\nTo stay updated\, you can join our email list by contacting ai-network@scilifelab.se  \n\n\n\n \n\n\n\n\nJoin Webinar
URL:https://www.scilifelab.se/event/understanding-the-molecular-mechanism-of-progressive-diseases-an-integrative-omics-network-approach/
LOCATION:Online event via Zoom
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20260324T090000
DTEND;TZID=Europe/Stockholm:20260325T170000
DTSTAMP:20260430T191058
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SUMMARY:Data Driven Systems Biology: Harnessing Big Data and Systems Approaches to Decode Complex Biology
DESCRIPTION:In the era of high-throughput technologies and rapidly expanding biomedical datasets\, the field of systems biology is undergoing a transformative shift. The Data-Driven Systems Biology conference brings together leading researchers who are leveraging computational\, statistical\, and systems-level approaches to integrate and interpret complex biological data. This conference will explore how multi-omics\, single-cell technologies\, and spatial profiling\, combined with advanced computational modeling and machine learning\, are reshaping our understanding of dynamic biological systems. \n\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 aim to unite researchers\, industry\, and healthcare to foster collaboration and advance the frontiers of data-driven life science. \n\n\n\nTarget Group: The 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 Life City\, Solna\, Stockholm\, and will include presentations from international and national invited speakers and selected abstracts. The event is free of charge. \n\n\n\nDate: March 24-25\, 2026 \n\n\n\nStart on March 24: 11:00 – 12:30 Registration open. 11:30-12:30 Network lunch. The conference starts in the Lecture hall at 12:30. \n\n\n\nEnd: March 25 with a Network lunch from 12:30 to 13:30. \n\n\n\nVenue: Life City\, Solnavägen 3H i Solna. \n\n\n\nOrganized by: Arne Elofsson and Eduardo Villablanca\, DDLS Expert Group in Cell and Molecular Biology. \n\n\n\nContact: events@SciLifeLab.se \n\n\n\nProgram\n\n\n\nAgenda_DDLS_CMB_March2026_v7Download\n\n\n\nPoster session\n\n\n\nThe poster session will take place at 17:30 in Delta\, Campus Solna. Light food and drinks will be served. Please hang your poster on any empty poster board as soon as you arrive to Campus Solna after the Conference’s first day. Pins will be available. \n\n\n\nAbstract book\n\n\n\nRegistration\n\n\n\nThe registration deadline is March 10. We cannot accept any posters after deadline. To avoid empty seats\, registration will remain open with a que-list until the event begins. However\, registering after March 10 requires you to write your name on a name tag at on-site registration. Unfortunately\, we cannot accommodate allergies or dietary preferences for those who register after March 10. \n\n\n\nRegister here\n\n\n\nCancellation\n\n\n\nPlease! To minimize empty seats and food waste\, cancel your registration if you are unable to attend\, or update your lunch selection if your attendance changes. Cancel/update via the Confirmation email or email events@scilifelab.se. \n\n\n\n\n\n\n\nConfirmed speakers\n\n\n\nAlfonso Valencia\, ICREA Professor\, Barcelona Supercomputing Center\, Spain\nTitle: Data\, Digital Twins and AI \n\n\n\nBio: Prof. Alfonso Valencia is ICREA research Professor\, Director of the Life Sciences Department of the Barcelona Supercomputing Center\, Director of the Spanish National Bioinformatics Institute INB/ELIXIR-ES and coordinator of the data pillar of the Spanish Personalised Medicine intiative\, IMPaCT. His research interest is the development of Computational Biology methods and their application to biomedical problems. Some of the computational methods he developed are considered pioneering work in areas such as biological text mining\, protein coevolution\, disease networks and more recently modelling cellular systems (digital twins). He participates in some of the key cancer related international consortia. In terms of community services\, he is one of the initial promoters of the ELIXIR infrastructure\, founder of the Spanish and International Bioinformatics networks and former president of ISCB\, the international professional association of Bioinformaticians. He is Executive Editor of the main journal in the field (Bioinformatics OUP). \n\n\n\nAbstract: In this talk I will treat in some order these three topics: Data\, human Ditigal Twins and the impact of AI in biomedicine. \n\n\n\nI will address the persistent bottleneck of data access in biomedical research\, where the combination of legal and technical hurdles span the entire data lifecycle\, from discovery and access to integrated analysis. I will mention the current developments to overcome these limitations by implementing federated discovery and analysis systems designed to work across borders and heterogeneous resources. \n\n\n\nRegarding Digital Twins\, I will discuss the importance of those developments in the transition from statistical correlations\, which are standard in genomics analysis\, to mechanistic interpretations that will better align with the core objectives of molecular biology.  We are approaching this underdeveloped area with the construction of mechanistic models of cellular systems\, that are already showing promising results in critical biological systems. \n\n\n\nFinally\, I will discuss how the rapid advances of AI is influencing the work in different areas of biomedicine – including specific examples of how we combine Digital Twins and AI methods- as well as what I see as promises and limitations in this area. \n\n\n\n\nAvlant Nilsson\, KI\nTitle: From Omics to Mechanisms: Deep Learning Models of Molecular Networks for Precision Cancer Medicine \n\n\n\nBio: Avlant Nilsson is an Assistant Professor in Precision Medicine at the Department of Cell and Molecular Biology\, Karolinska Institutet\, and a group leader at SciLifeLab through the DDLS program. He holds an MSc (2014) and a PhD (2019) in Biological Engineering from Chalmers University of Technology\, where his thesis focused on the metabolism of proliferating cells\, including liver cancer. He then pursued postdoctoral research at the Massachusetts Institute of Technology (2019–2023)\, developing neural network models of signal transduction in immune cells. His research group\, currently comprising of two PhD students and two postdoctoral researchers\, develops data-driven models of molecular networks to understand how genetic alterations\, cell type of origin\, and cell–cell interactions shape cancer biology. The long-term goal of the lab is to advance computer-aided design of cancer medicine by predicting drug responses\, resistance mechanisms\, and microenvironmental interactions. \n\n\n\nAbstract: Cancer is highly heterogeneous\, spanning a multitude of genetic alterations\, cell types\, and microenvironmental contexts\, making it difficult to identify effective treatments for individual patients. Deep learning models are powerful predictive tools that could be applied to large-scale molecular data\, but their black-box nature limits their ability to generate mechanistic insight to guide therapeutic intervention. \n\n\n\nTo overcome this\, we develop biologically informed neural network models that embed known molecular interaction networks directly into the deep learning architecture. Specifically\, we construct recurrent neural network models of cells in which biomolecules are represented as nodes with connections defined by their physical interactions. These models take data with molecular causes as input (such as mutations and copy number variations) and are trained to predict omics readouts\, including gene expression\, protein phosphorylation states\, and metabolite levels. \n\n\n\nBy training models on high-throughput datasets spanning different cell types\, perturbations\, and conditions\, we can predict molecular responses in conditions that are withheld during training. We also use these models to expose non-canonical signaling events that would be difficult to identify directly from the data using standard analysis approaches. With this\, our framework offers the potential to identify novel drug targets\, biomarkers\, and to predict resistance mechanisms. \n\n\n\n\nCamilla Engblom\, KI\nTitle: Spatially resolving B cell clonal dynamics in cancer and beyond \n\n\n\nBio: Dr. Camilla Engblom is a SciLifeLab Fellow and an Assistant Professor in the Division of Immunology and Respiratory Medicine and the Department of Medicine\, Solna at the Karolinska Institutet (KI). Dr. Engblom received her PhD in Immunology from Harvard University in 2017 focusing on long-range cancer-host interactions involving myeloid cells (Dr. Mikael Pittet’s lab at Massachusetts General Hospital/Harvard Medical School). As a MSCA postdoctoral fellow in Dr. Jonas Frisén’s lab (KI)\, Dr. Engblom developed a spatial transcriptomics-based tool (Spatial VDJ) to map B cell and T cell receptors within human tissues. Located at SciLifeLab and the Center for Molecular Medicine (KI)\, the Engblom lab’s main research focus is to spatially and functionally resolve B cell clonal dynamics in cancer tissues and beyond. \n\n\n\nAbstract: B cells perform functions critical to human health\, including antibody production and antigen presentation. B cells develop\, differentiate\, and expand in spatially distinct sites across the body. B cells express clonal heritable B cell receptors (BCR) that confer exquisite molecular (i.e.\, antigen) specificity. B cell receptors can be defined by sequencing. Linking specific BCR sequences to their molecular and cellular surroundings\, i.e.\, ‘clonal niche’\, could help us understand and harness B cell activity. A technological bottleneck has been to capture the location of BCR sequences\, and by extension B cell clonal responses\, directly within tissues. We recently developed a spatial transcriptomics-based approach (Spatial VDJ) and associated computational pipelines to reconstruct B cell clonality in human tissues. Here\, we present adaptation of Spatial VDJ to murine tissue to enable preclinical studies and B cell receptor dynamics under inflammatory conditions\, including cancer. \n\n\n\n\nCarsten Hopf\, CeMOS Center for Mass Spectrometry and Optical Spectroscopy\, TH Mannheim\, Germany\nTitle: Enabling technologies for spatial metabolomics: Moving from single cells to 3D-space exploration in mixed reality \n\n\n\nBio: Carsten Hopf obtained his PhD in biochemistry from Tübingen University/Max-Planck-Institute for Developmental Biology. As an EMBO fellow in neuroscience\, he then worked at the Johns Hopkins University School of Medicine for three years\, before joining Cellzome AG\, a proteomics-focused drug discovery platform company in Heidelberg in 2001. There\, for 13 years\, he served in multiple roles in platform technology\, assay development\, drug discovery and business development\, and eventually as part of Cellzome’s leadership team until the end of 2014. \n\n\n\nSince 2005\, Carsten Hopf is a professor of bioanalytics\, proteomics and drug discovery at TH Mannheim. He currently heads TH.M’s CeMOS Research and Transfer Center that was recently selected as mass spectrometry imaging partner site of the EU-OPENSCREEN research infrastructure that SciLifeLab and KI are also parts of. Carsten is the Speaker of the M2Aind partnership for innovation in health industry in Mannheim\, and he serves on various science and innovation cluster boards. He is also an associated professor in the Medical and Biosciences Faculties of Heidelberg University and co-chair for “imaging” of the German Society for mass spectrometry (DGMS). Carsten’s research focuses on Mass Spectrometry and Optical Spectroscopy enabling technologies for health and life science\, especially spatial systems biomedicine. \n\n\n\nAbstract: MALDI-Mass spectrometry imaging (MSI)\, also referred to as spatial metabolomics\, has emerged as a powerful technology for spatially resolved analysis and visualization of lipids and metabolites in systems biology and clinical research. Advancement of MSI requires rapid progress in multiple areas such as instrumentation\, experimental workflows and computational strategies to harness big data. The talk will therefore initially review a “classic” technology show case using tissue slices: Spatial metabolomics revealed that Tet3 knockout enterocytes exhibit an unphysiological metabolic profile when compared with their wild-type counterparts suggesting that terminal cell differentiation is regulated by TET3 at the metabolic level. MSI technology has recently moved into two new directions: Single-cell metabolomics and 3D-reconstructed metabolomics. \n\n\n\nTo study proinflammatory activation of iPSC-derived microglia by bacterial lipopolysaccharide (LPS)\, we developed the PRISM-MS (PRescan Imaging for Small Molecule – Mass Spectrometry) platform for analysis and on-cell MS2 identification of low mass metabolites (<200 Da) in large cell populations. Itaconate and taurine were identified as markers for “activated” versus “resting” microglia\, respectively. Translation of single cell results to endogenous microglia in organotypic rat hippocampal slice cultures indicated that LPS-activation involves changes of the itaconate-to-taurine ratio and alterations in neuron-to-glia glutamine-glutamate shuttling. \n\n\n\nTo investigate fibroblast-colon cancer cell interactions in a simple 3D-culture model and in patient-derived organoids (PDOs)\, we built a translational 3D MSI platform as an end-to-end solution for 3D-enabling sample preparation\, 3D-reconstruction and data processing\, 3D-rendering\, and immersive user interaction with organoid big data in a mixed reality. When applied to colon cancer PDOs\, the methodology revealed that fluid-filled cysts characteristic of these PDOs were rich in purine nucleotides. \n\n\n\n\nErik Sonnhammer\, Stockholm University\nTitle: Harnessing Big Data for Network Biology with FunCoup 6 \n\n\n\nBio: Erik Sonnhammer is Professor of Bioinformatics at Stockholm University\, and previously had the same position at Karolinska Institutet\, Stockholm. He did a Ph.D. in bioinformatics at the Sanger Institute in Cambridge\, England. His research interests are in network and systems biology to understand gene and protein function on a large scale. The group has made many contributions to Gene Regulatory Network analysis\, including inference\, benchmarking\, and simulation. \n\n\n\nAbstract: FunCoup 6 is a major update to the FunCoup network database\, providing researchers with a significantly improved and redesigned platform for exploring the functional coupling interactome.  The FunCoup network database (https://FunCoup.org) contains some of the most comprehensive functional association networks of genes/proteins available. Functional associations are inferred by integrating different types of evidence combined with orthology transfer. FunCoup’s high coverage comes from using ten different types of evidence\, and extensive transfer of information between species.  \n\n\n\nKey innovations in release 6:– Enhanced regulatory link coverage: FunCoup 6 now includes over half a million directed gene regulatory links in the human network alone. 13 species in FunCoup now contain regulatory links..– The website is completely redesigned\, with updated API functionalities\, ​enhancing user accessibility and experience.– Integrated advanced online tools for network analysis: The integration of TOPAS for disease and drug target module identification\, along with network-based pathway enrichment analysis using ANUBIX\, expand the utility of FunCoup 6 for biomedical research.– New training framework: applied to produce comprehensive networks for 23 primary species and 618 additional orthology-transferred species.– FunCoup 6 is also available as a Cytoscape app. \n\n\n\nA unique feature of both the FunCoup website and the Cytoscape app is the possibility to perform ‘comparative interactomics’ such that subnetworks of different species are aligned using orthologs. FunCoup further demonstrates superior performance compared to other functional association networks\, offering researchers enhanced capabilities for studying gene regulation\, protein interactions\, and disease-related pathways.  \n\n\n\n\nJean Hausser\, KI\nTitle: Learning cellular dynamics of tissues from single-cell and spatial omics \n\n\n\nBio: Jean researches mathematical rules in the molecular tricks that cancer cells use to escape destruction by immune cells. We seek to articulate the molecular chat between immune and cancer cells into equations\, to serve as the foundation to engineer personalized cancer immunotherapy. We combine single-cell and spatial tumor profiling experiments\, machine-learning & data science\, and physics-style mathematical modeling. \n\n\n\nAbstract: Cell proliferation and death rates are central to tissue biology but measuring them in vivo remains a persistent challenge. Here we present tissue dynamics inference (TIDYI)\, which quantifies absolute cell proliferation and death rates from non-longitudinal single-cell RNAseq snapshots. TIDYI expands the capability of single-cell RNAseq to extracting the cell dynamics of healthy and pathological tissues in vivo. \n\n\n\n\nKaterina Despoina Nastou\, Statens Serum Institut\, Denmark\nTitle: Extracting protein-protein interactions from the literature with deep learning-based text mining \n\n\n\nBio: Katerina Nastou holds a Ph.D. in Bioinformatics and is a researcher at Statens Serum Institut in Copenhagen\, specializing in multi-omics data analysis\, biomedical text mining\, and systems biology. Her work focuses on applying deep learning to extract and model molecular relationships from large-scale biological data and the scientific literature. She has contributed to the STRING database\, a leading resource on protein networks\, by upgrading its text-mining channel with advanced deep learning-based language models. She also currently collaborates internationally on projects such as AIM-HEART and EPOCH. \n\n\n\nAbstract: Biomedical knowledge about molecular mechanisms is still mostly buried in the vastness of the biomedical literature. In this talk\, I will introduce a deep learning-based text-mining pipeline that reads the biomedical literature to extract protein-protein interactions and typed regulatory relations\, then plugs them into the STRING database. Powered by transformer-based language models\, the approach goes beyond simple co-occurrence to recover interactions that are mechanistically specific and often missed. I will highlight why high-quality labelled data are the real bottleneck\, how we tackle it with human-in-the-loop annotation\, and what we learned from models trained on the ComplexTome and RegulaTome corpora. Finally\, we will explore the possibilities unlocked by scaling up evidence-linked relation extraction. \n\n\n\n\nLucy Colwell\, University of Cambridge\, UK\nTitle: Data driven models that predict protein function from sequence \n\n\n\nBio: Lucy Colwell is a researcher on the Science team at Google DeepMind and a faculty member in chemistry at the University of Cambridge. Her primary interests are in the application of machine learning approaches to better understand the relationship between the sequence and function of proteins. Before moving to Cambridge Lucy received her PhD from Harvard University and held an EPSRC fellowship at the Institute for Advanced Study in Princeton\, NJ and the MRC-LMB in Cambridge. In 2018 Lucy was appointed a Simons Investigator in the Mathematical Modeling of Living Systems. Over the last few years Lucy’s team has worked closely with experts at EMBL-EBI to add millions of AI-generated protein function annotations to public databases. \n\n\n\nAbstract: Predicting protein function from amino acid sequence remains a fundamental challenge\, essential for discovering novel biological mechanisms and interpreting the functional effects of genomic mutations. By training on large curated sequence repositories\, we have developed machine learning models that map raw sequences directly to functional annotations. To provide a full-spectrum portrait of protein function\, our specialized large language models are trained to predict a suite of global functional fields (such as protein names\, GO terms\, and functional descriptions) directly from sequence.Moreover\, we present a novel approach that adapts Vision Transformer (ViT) architectures to the task of sequence segmentation\, enabling the end-to-end prediction of discrete functional domains—allowing a single model to make predictions across complex\, nested\, or discontinuous architectures. Crucially\, these systems successfully bridge large homology gaps; their predictions have been prospectively and independently experimentally validated\, demonstrating high levels of accuracy even for novel sequences that are highly distant from the training set. Finally\, we worked closely with collaborators at EMBL-EBI and across InterPro member databases\, collectively adding millions of predicted annotations to public databases and significantly expanding our functional map of the dark proteome. \n\n\n\n\nMarcel Tarbier\, Uppsala University\nTitle: That’s Gonna Leave a Mark: Computational inference of complex cell features \n\n\n\nBio: Marcel studied Biology and Bioinformatics in Germany before starting his PhD in Computational Biology at Stockholm University. In the lab of Marc Friedländer he characterized subtle gene expression variations in virtually identical cells – linking them to regulatory layers and showing their predictive potential. He moved to the lab of Vicent Pelechano at Karolinska Institute for his postdoc to investigate single-cell RNA degradation dynamics and cell lineage relationships – resulting in pioneering work which showed that cellular ancestries can be predicted using only gene expression. In 2025\, he started his lab as a DDLS fellow in precision medicine and diagnostics at Uppsala University and SciLifeLab\, focusing on computational approaches to infer complex cell features\, such as lineage and micro-environment\, to characterize cancer heterogeneity and phenotype switches. \n\n\n\nAbstract: In molecular biology and medicine the molecular composition of samples is the most utilized readout\, and transcriptomic measurements are at the heart of a myriad of break-throughs from developmental biology to pathophysiology. In complex systems\, single-cell readouts have revolutionized our understanding of molecular mechanisms. But single-cell gene expression measurements are “confounded” by complex cell features such as cell lineage relationship\, cellular micro-environment and cell cycle phase. None of these features can easily be measured alongside comprehensive single-cell readouts\, greatly limiting our ability to draw conclusions from single cell data and to put them into biological context. \n\n\n\nWe therefore develop computational tools to infer ancestry\, environment and cell cycle phase from gene expression data. These tools compute approximations of these features based on the marks they leave on the gene expression profiles. Here we present our latest advances in inferring cell lineage relationships in in situ sequencing data\, as well as the cellular microenvironment and cell-cycle phases in single-cell RNA-sequencing data using neural networks. \n\n\n\n\nMika Gustafsson\, Linköping University\nTitle: “Integrating protein interaction maps and omics for explainable health indicators” \n\n\n\nBio: Mika Gustafsson is a Professor in Translational Bioinformatics (PhD in Theoretical Physics\, 2010) at the Department of Physics\, Chemistry and Biology\, Technical Faculty\, Linköping University. Over the past ten years\, he has led a research group of five to seven members. His core expertise lies in creating and integrating network analyses with omics and has been developing machine learning methods for precision medicine. In many projects\, he has led medical doctors and molecular biologists in testing and validating omics-based findings\, working primarily on complex diseases such as multiple sclerosis. \n\n\n\nAbstract: High-dimensional omics data such as genome-wide DNA methylation capture cumulative effects of development\, environment\, lifestyle\, and disease. Yet\, most predictive models trained on these data remain difficult to interpret biologically\, limiting their utility for systems-level reasoning and clinical decision support. In this work\, we present a unifying framework that integrates protein–protein interaction (PPI) networks into deep representation learning\, yielding biologically structured\, explainable embeddings that support both multi-omic modeling and systems level health assessment. \n\n\n\nWe first show that deep autoencoders trained on large DNA methylation and transcriptomic compendia naturally organize their latent spaces into functionally coherent modules. By introducing a soft PPI prior during training\, we encourage each latent unit to correspond to localized regions of the human interactome\, without hard-wiring biological constraints. This network-guided learning produces compact\, non-redundant latent representations aligned with core biological processes such as immune signaling\, metabolism\, cell-cycle control\, and mitochondrial function. Importantly\, these structured embeddings transfer their mechanistic organization to downstream tasks: in cancer cohorts\, cross-omic translation models built on PPI-guided embeddings outperform accuracy-matched baselines while preferentially recovering known driver genes and hallmark pathways. As an intermediate example linking molecular representation to organismal phenotype\, we apply the same network-coherent embeddings to epigenetic aging. Using whole-blood DNA methylation across the human lifespan (n ≈ 18\,000)\, we develop highly accurate and interpretable neural-network age clocks that integrate data-driven embeddings with established CpG markers. These models not only achieve state-of-the-art precision but also recover age-specific epigenetic signatures enriched for example by developmental processes. Finally\, we use these representations for systems level health modeling. By defining bounded respiratory\, cardiovascular\, and metabolic health scores from clinical reference ranges and disease penalties\, and predicting them from blood methylation embeddings\, we obtain accurate and transparent health indicators that reflect both population structure and multi-system coupling. Feature attribution reveals biologically meaningful processes underlying each system\, such as airway repair and hypoxia responses for respiratory health\, endothelial remodeling for cardiovascular status\, and glucose–lipid metabolism for metabolic function. \n\n\n\nTogether\, this work demonstrates that embedding functional network knowledge directly into representation learning provides a scalable route from omics data to explainable\, system-aware health indicators. By keeping biology in the loss\, the approach remains flexible\, extensible\, and suitable for large cohorts and thereby advancing explainable AI for systems biology\, aging research\, and clinical decision support. \n\n\n\n\nSimon Koplev\, KTH\nTitle: Dynamics of immunological tissue architecture linking inflammation with colorectal cancer \n\n\n\nBio: Simon Koplev is a SciLifeLab Fellow and newly appointed group leader in computational biology at KTH Royal Institute of Technology\, Department of Gene Technology. He leads a computational biology research group investigating the fundamental principles and architecture of human tissues across organs in healthy steady-state and disease perturbations. The group is engaged with collaborative large-scale and open science efforts such as the Human Cell Atlas\, developing the next generation of reference datasets and computational methods. Simon holds a PhD in Medical Science from the University of Cambridge at the Cancer Research UK Cambridge Institute supervised by John Marioni and Martin Miller. He did his postdoc with Sarah Teichmann at the Sanger Institute and Cambridge Stem Cell Institute\, working on human single-cell and spatial studies of intestinal fibroblasts. Simon has 12 years of experience in bioinformatics research having published with more than 500 co-authors 35 peer-reviewed papers\, spanning research on cancer\, cardiovascular diseases\, fibroblasts\, gene regulatory networks\, and computational methods development using machine learning. He holds a MScEng in Systems Biology from the Technical University of Denmark\, supervised by Søren Brunak\, including 2 semesters as a Research Scholar at the Dana-Farber Cancer Institute\, Harvard Medical School. Simon began his scientific career with a BS in Biochemistry from the University of Copenhagen. \n\n\n\nAbstract: TBA \n\n\n\n\n\n\n\n\nManage your registration\n\n\n\n\nImproved 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/data-driven-systems-biology-harnessing-big-data-and-systems-approaches-to-decode-complex-biology/
LOCATION:Life City\, Solnavägen 3H\, Stockholm\, 113 64
CATEGORIES:Event
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END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20260507T080000
DTEND;TZID=Europe/Stockholm:20260508T170000
DTSTAMP:20260430T191058
CREATED:20251106T123112Z
LAST-MODIFIED:20260420T143604Z
UID:10001660-1778140800-1778259600@www.scilifelab.se
SUMMARY:Research Opportunities at the Intersection of Society\, Life Sciences\, and Technology 
DESCRIPTION:A Joint Conference between DDLS\, WASP and WASP-HS \n\n\n\nUniting Sweden’s life science\, machine learning and artificial intelligence communities\, we welcome researchers from all disciplines to explore new research opportunities in a changing world.    \n\n\n\nParticipants will have the opportunity to network\, be inspired by excellent international keynote speakers\, and take part in the latest research in Sweden. In addition to plenary keynotes\, the program will offer a panel discussion\, a poster session and ample time to mingle.  \n\n\n\nPractical Details \n\n\n\nDates  \n\n\n\nMay 7-8\, 2026  \n\n\n\nVenue  \n\n\n\nUppsala Konsert & Kongress  \n\n\n\nRegistration \n\n\n\n\nRegister here\n\n\n\n\nDeadline April16 \n\n\n\nBackground \n\n\n\nWallenberg AI\, Autonomous Systems and Software Program (WASP)\, the SciLifeLab and Wallenberg National Program for Data-Driven Life Science (DDLS)\, and Wallenberg AI\, Autonomous Systems and Software Program – Humanity and Society (WASP-HS) are collaborating through joint research projects and events with the ultimate goal of solving ground-breaking research questions across disciplines.  \n\n\n\nKeynotes\n\n\n\n\n\nMaja FjaestadAdjunct Associate Professor\, Department of Computing Science at Umeå University\n\n\n\n\n\nOlli KallioniemiResearch Director at FIMM University of Helsinki\, Professor of Molecular Precision Medicine at KI Institutet & SciLifeLab\n\n\n\n\n\nDanica KragicProfessor at the School of Computer Science and Communication at the Royal Institute of Technology\, KTH–\n\n\n\n\n\nPreliminary program \n\n\n\nThursday\, May 7\n\n\n\n09.00  Registration opens (coffee) + poster hanging10.00  Opening Remarks:Program Directors from the three Research Programs \n\n\n\n10.20 Keynote “Algorithmic rule: AI and the future of democracy”Maja Fjaestad\,Associate professor at Umeå Universitet \n\n\n\n11.00 Flash Talks: Future Ideas at the Intersection of Society\, Life Sciences & TechnologyPhD Students and Post Docs from the three Research Programs \n\n\n\n11.45 Parallel Workshops\, Session 1 \n\n\n\n12.30 Lunch \n\n\n\n14:00 Keynote “A plan for the Finnish Health Data Space (FHDS) in the AI era: Navigating  health\, data\, legal\, social and political aspects”Olli Kallioniemi\, Research Director at FIMM\, University of Helsinki\, and Professor of Molecular Precision Medicine at Karolinska Institutet and SciLifeLab \n\n\n\n14.40 Panel: Initiatives in the NordicsArto Klami\, Professor of Computer Science at University of Helsinki. Part of the Helsinki Probabilistic Machine Learning Lab\, the Finnish Center for Artificial Intelligence FCAI\, and faculty of the ELLIS Institute Finland. \n\n\n\nStine Lomborg\, Professor of Digital Communication at University of Copenhagen\, Director of the Interdisciplinary Center for Tracking & Society\, Chief Scientist at the Danish national center for AI in society (CAISA) \n\n\n\nMalcolm Langford\, Professor of Public Law\, University of Oslo and Co-Director of TRUST: Norwegian Centre for Trustworthy AI.  \n\n\n\n15.20 Coffee \n\n\n\n16.00 Parallel Workshops\, Session 2 \n\n\n\n17.00 Mingle food and Poster Session \n\n\n\n\n\n\n\nFriday\, May 8\n\n\n\n08:30 Parallel Workshops\, Sessions 3 \n\n\n\n9.40 Keynote “Perception\, Action\, Intercation in Physical AI systems”Danica Kragic\, Professor at the School of Computer Science and Communication at the Royal Institute of Technology\, KTH \n\n\n\n10.20 Coffee \n\n\n\n10.45 Presentations of funded projects\, NEST & Research Initiation GrantsTime-Resolved Imaging and Multi-Channel Evaluation of Cellular Dynamics (TIMED) – Ola Spjuth\, Professor of Pharmaceutical Bioinformatics\, Uppsala University \n\n\n\nThe 3D dynamics of the chromosome – Johan Elf\, Professor of Physical Biology\, Uppsala University \n\n\n\nMultimodal AI-based Precision Diagnostics and Decision Support for Breast Cancer (AID4BC) – Jens Sjölund\, WASP Fellow and Assistant Professor in Artificial Intelligence (AI)\, Uppsala University \n\n\n\nAI tools for mental health: Clinical Trials – Sverker Sikström\, Professor Cogntive Psychology\, Lund University & Axel C Carlsson Associated Professor\, Karolinska Institutet \n\n\n\nExplainable and Just AI in Data-Driven Disease Surveillance – Yana Litins’ka\, Associate Professor\, Lund University & Atiye Sadat Hashemi\, Associate Postdoctoral Researcher\, Lund University \n\n\n\nPersonalized medicine: Ethics and knowledge-making in data-driven medical prediction – Stefan Larsson\, Associate Professor of Technology and Social Change\, Lund University &  Markus Lingman\, Specialist Physician in Cardiology Adjunct Professor Medicine\, University of Halmstad &  Charlotte Högberg\, PhD\, Postdoc in Technology and Society\, Lund University \n\n\n\n11.45 Closing remarks \n\n\n\n12.00 End of day with lunch to go \n\n\n\n\n\n\n\nKeynote speakers\n\n\n\nMaja Fjaestad\, adjunct professor\nTitle: Algorithmic rule: AI and the future of democracyBio: Dr Maja Fjaestad worked at the EU’s European Artificial Intelligence Office in 2025 and has since returned to Sweden as a strategic advisor at Karolinska Institutet\, associate professor at AI Policy lab at Umeå University and adjunct professor at Luleå University of Technology. She holds a PhD in the history of technology from KTH\, has conducted research at the Max Planck Institute\, and is affiliated with the Institute for Futures Studies. She is also an expert coordinator at the Centre for Health Crises at Karolinska Institutet\, a member of the Royal Swedish Academy of Engineering Sciences (IVA)\, an author\, and a sought-after speaker \n\n\n\n\nDanica Kragic\, Professor KTH\nTitle: Perception\, Action\, Intercation in Physical AI systemsBio: Danica Kragic is a Professor of Computer Science at KTH. Her research is in the area of robotics\, computer vision and machine learning. She received ERC Starting Grant\, Advanced and Synergy Grants\,  Distinguished Professor Grant from the Swedish research Council and she is a Wallenberg Scholar. \n\n\n\n\nOlli Kallioniemi\, Research Director and Professor University of Helsinki\,  Karolinska Institutet and SciLifeLab\nTitle: A plan for the Finnish Health Data Space (FHDS) in the AI era: Navigating  health\, data\, legal\, social and political aspects Bio: Olli Kallioniemi is Research Director at FIMM\, University of Helsinki\, and Professor of Molecular Precision Medicine at Karolinska Institutet and SciLifeLab. Trained in medicine and clinical chemistry in Finland\, he later held tenure-track and tenured positions at NHGRI/NIH. He served as founding Director of FIMM (2007–2015)\, Director of SciLifeLab (2015–2024)\, and inaugural Director of the DDLS program (2022–2025). His research focuses on AI- and data-driven precision medicine\, particularly in hematologic and prostate cancers. He has authored over 420 publications\, holds more than 20 patents\, supervised 27 doctoral theses and over 30 postdoctoral fellows. He is an elected member of EMBO\, the Royal Swedish Academy of Sciences\, the European Academy of Cancer Sciences\, and the Nobel Assembly. \n\n\n\n\n\n\n\n\nPanelists: Initiatives in the Nordics\n\n\n\nArto Klami\nProfessor of Computer Science at University of Helsinki. Part of the Helsinki Probabilistic Machine Learning Lab\, the Finnish Center for Artificial Intelligence FCAI\, and faculty of the ELLIS Institute Finland. \n\n\n\n\nStine Lomborg\nProfessor of Digital Communication at University of Copenhagen\, Director of the Interdisciplinary Center for Tracking & Society\, Chief Scientist at the Danish national center for AI in society (CAISA) \n\n\n\n\nMalcolm Langford\nMalcolm Langford is Professor of Public Law at the University of Oslo and Co-Director of TRUST: The Norwegian Centre for Trustworthy AI. His scholarship is grounded in law\, social science\, and data science and his publications span international and comparative law\, human rights and development\, and AI and emergent technologies. Langford has won several prizes for his work on international adjudication and legal education and technology\, and he has previously led the Digital Lawyer project\, CELL Centre of Excellence in Education\, and the Investor–State Dispute Settlement Academic Forum for UNCITRAL. He also leads a new Nordforsk project (NordAId: Trustworthy AI in Public Decision Making) and infrastructure project for sensitive public data (S2-Data) and he has advised a range of governments\, international organisations and non-governmental organisations on human rights and technology. \n\n\n\n\n\n\n\n\nNEST-flashtalks\n\n\n\nOla Spjuth\, Professor of Pharmaceutical Bioinformatics \nTitle: Time-Resolved Imaging and Multi-Channel Evaluation of Cellular Dynamics (TIMED)Bio: Ola Spjuth received his PhD in Bioinformatics from Uppsala University in 2009 and completed postdoctoral fellowships at Karolinska Institutet in Stockholm and the Finnish Institute of Molecular Medicine (FIMM) in Helsinki. He is currently Professor of Pharmaceutical Bioinformatics at the Department of Pharmaceutical Biosciences\, Uppsala University. His research focuses on how AI and automation\, together with high-throughput and high-content molecular and cellular profiling technologies\, can accelerate drug discovery and address complex challenges in pharmacology and toxicology. \n\n\n\n\nJohan Elf\,  Professor Uppsala University\nTitle: The 3D dynamics of the chromosomeBio: Johan has pioneered single-molecule fluorescence microscopy in living cells. This work has been complemented by the development of microfluidics\, synthetic biology\, and computational analysis tools. His most significant innovations include optical pooled screening and phenotypic antibiotic susceptibility testing at the level of individual bacteria.  \n\n\n\n\nJens Sjölund\, WASP Fellow at Uppsala University\nTitle: Multimodal AI-based Precision Diagnostics and Decision Support for Breast Cancer (AID4BC)Bio: Jens Sjölund is an assistant professor in AI at Uppsala University\, WASP Fellow\, and ELLIS member. His research is in machine learning and optimization\, with applications across science and medicine. He previously worked as a senior research scientist at Elekta\, where his dose optimization work formed the basis for Leksell Gamma Knife Lightning. \n\n\n\n\n\n\n\n\nResearch Initiative Grants (RIG) Flashtalks\n\n\n\nSverker Sikström\, professor cogntive Psychology & Axel C Carlsson\, Associated professor \nTitle: AI tools for mental health: Clinical Trials  \n\n\n\nBio1: Sverker Sikström is Professor of Cognitive Psychology at Lund University\, and the founder and scientific lead of TalkToAlba\, specializing in language based psychometrics and AI for mental health . He is a serial founder and recipient of innovation awards such as Lund University & Sparbanken Finns Innovations Prize and Venture Cup’s Startup of the Year. His academic work has been cited over 7\,000 times\, with an h index of 33.Bio2: Axel C Carlsson conducts broad research on diseases in primary care\, with projects ranging from early detection of cancer\, cognitive testing and machine learning for early identification of dementia\, to studies on high blood pressure and cardiovascular risk in the population\, post-COVID syndrome\, and mental health. \n\n\n\n\nYana Litins’ka\, Associate professor & Atiye Sadat Hashemi\, Associate Postdoctoral Researcher \nTitle: Explainable and Just AI in Data-Driven Disease Surveillance \n\n\n\nBio1: Yana Litins’ka is an Associate Professor and Senior Lecturer in Public Law at Lund University. She holds an LL.D. degree in Medical Law and has been appointed as Associate Professor in Medical Law at Uppsala University. Her research sits at the intersection of health law\, public health\, and human rights\, with a particular focus on how legal frameworks shape the protection of vulnerable groups. A central thread in her work concerns autonomy in healthcare and the boundaries of coercion and voluntariness. She also engages with rights-based perspectives on access to healthcare\, including migrants’ access to health services and the rights of persons with disabilities. Yana works on a range of public health topics within law\, including infectious disease control measures and preparedness for future health emergencies\, examining\, for example\, the legal regulation of vaccination\, the permissibility of restrictions on freedom of movement and privacy for public health purposes\, and requirements for AI-based epidemiological monitoring.Bio2: Atiye Sadat Hashemi received her Ph.D. in Electronic Engineering from Semnan University and was a visiting Ph.D. researcher at the Chair of Signal Processing and Machine Learning\, Institute for Communications Technology at Technische Universität Braunschweig in Germany during 2020–2021. She was a postdoctoral fellow in Center for Applied Intelligent Systems Research at Halmstad university and currently she is an associate postdoctoral researcher in AI in Medicine at Lund University\, Sweden\, where she is the Principal Investigator of a Research Initiation Grant from SciLifeLab and serves as Co-Principal Investigator on a grant from Swedish Research Council (VR) focused on the application of artificial intelligence in infectious diseases. Her research lies at the intersection of artificial intelligence and healthcare\, with particular emphasis on disease outbreak surveillance\, privacy-preserving machine learning\, and adversarial learning methods. \n\n\n\n\nStefan Larsson\, Associate Professor of Technology and Social Change\, Markus Lingman\, Specialist Physician in Cardiology\,  Adj. Professor Medicine & Charlotte Högberg\, PhD\, Postdoc in Technology and Society\nTitle: Personalized medicine: Ethics and knowledge-making in data-driven medical prediction \n\n\n\nBio1: Stefan Larsson  is a social science technology researcher at the Department of Technology and Society\, Lund University in Sweden\, where he leads a research group on AI and society that do interdisciplinary studies on norms\, ethics and governance issues linked in the human-AI/robotics intersection.Bio2: Markus Lingman is a cardiologist\, chief strategy officer and adjunct professor of medicine at University of Halmstad and affiliations at the Sahlgrenska Academy and Karolinska Institutet. His research has a focus on applied AI in healthcare and medicine leveraging real-world data. Bio3: Charlotte Högberg is a postdoctoral research fellow at The Department of Technology and Society\, Lund University\, specialized in Science and Technology Studies and medical AI. Her work concerns practices\, ethics and epistemologies of the development and use of AI in medicine\, healthcare and the public sector.  \n\n\n\n\n\n\n\n\nWorkshop sessions\n\n\n\nAlongside plenary talks\, the conference will feature parallel interactive workshops addressing a wide range of interdisciplinary themes. Together\, these sessions will explore how advances in AI and data science are reshaping research practices\, governance frameworks\, and collaboration across domains\, from biomedical discovery to societal impact. \n\n\n\nAI for Science! An interactive discussion on a new initiative\nWorkshop Organizer: Salla Franzén \n\n\n\nDescription: This workshop aims at creating awareness and collecting feedback around a new initiative to support academic researchers with AI competence through a new company called AI4S AB (AI for Science)\, funded by Knut and Alice Wallenberg Foundation. We offer AI support to academic researchers with ongoing grants from the three largest Wallenberg Foundations for up to 6 months full time. \n\n\n\nSession 1 \n\n\n\n\nWhat is the future of AI-supported precision medicine? Scrutinizing personalized care\, equal treatment and disruption of knowledge\nWorkshop Organizer: Charlotte Högberg \n\n\n\nDescription: The current development of AI-supported precision medicine\, and personalization of medical knowledge and treatment\, raises concerns about ethics and fair representation. This interdisciplinary workshop examines questions of ethics and knowledge in AI-supported precision medicine\, including fairness\, prioritization\, and changing knowledge practices. The goal is to produce a discussion paper identifying policy proposals and issues in need of further cross-disciplinary discussion. \n\n\n\nSession 1 \n\n\n\n\nLarge Language Models in Conflict: Knowledge\, Legitimacy\, and AI\nWorkshop organizer:  Mais Qandeel \n\n\n\nWorkshop Description: Large language models contribute to the production of knowledge\, such as ideas and recommendations. The accuracy and reliability of this knowledge remain questionable. What if these models contribute to the mass killing of people through mass surveillance? We ask: what does LLMs’ production of knowledge reveal about the ethical and legal dimensions of their use\, given the untrustworthiness of their outputs? The discussion follows the ‘Jonsered model’Session 1 \n\n\n\n\nUnpacking Technology Through Interdisciplinary Reflection\nWorkshop Organizer: Derya Akbaba \n\n\n\nAbstract: In this collaborative and hands-on workshop\, we will introduce and lead participants through a series of reflective exercises known as the implosion method. This exercise outlines social and historical considerations around the responsibilities\, concerns\, and attentions of researchers working on and with technology. Workshop attendees are expected to learn a new method for reflecting on the socio-technical impacts of their research and making connections across disciplines. \n\n\n\nSession 1 \n\n\n\n\nZero-Click Futures: Safeguarding Knowledge Pluralism in the Age of Generative AI\nWorkshop Organizer: Selcen Ozturkcan \n\n\n\nWorkshop Description: Generative AI is reshaping how knowledge is accessed\, synthesized\, and trusted. This interactive workshop explores the rise of zero-click information environments and their risks for transparency\, diversity\, and epistemic justice. Participants will collaboratively design actionable principles for building responsible AI systems that protect knowledge pluralism\, informational autonomy\, and public trust. \n\n\n\nSession 1 \n\n\n\n\nFoundation models on European biomedical and healthcare data: ethical\, legal\, and technical pathways to life-course precision health\nWorkshop Organizer: Clemens Wittenbecher \n\n\n\nWorkshop description: This workshop explores how AI foundation models applied to biomedical and health data can enable personalized prevention and healthcare\, considering critical questions of governance\, transparency\, bias\, and clinical integration. We will jointly identify current technical\, social\, and ethical challenges to leverage foundation models for responsible\, data‑driven healthcare in Europe and discuss them with an expert panel. \n\n\n\nSession 2 \n\n\n\n\nLegal consciousness in the tech community\nWorkshop Organizer: Katalin Kelemen \n\n\n\nWorkshop Description: How do tech professionals navigate law in real-world design choices? This workshop uses practical scenarios and small-group discussions to examine how programmers interpret\, use\, or resist legal norms alongside technical and organisational expectations. The session invites computer scientists\, legal scholars\, and social scientists to reflect on tensions\, strategies\, and pathways toward more legally conscious technology development. \n\n\n\nSession 2 \n\n\n\n\nSciLifeLab OMERO: A Collaborative HPC-Enabled Platform for Data-Driven Bioimaging Research\nWorkshop Organizer: Sonja Mathias \n\n\n\nDescription: This workshop introduces SciLifeLab’s national OMERO service – a tool to bridge the gap between data producers and methods developers by enabling collaborative access to (bio)imaging data sets. Built on the globally recognized\, open-source\, data management platform OMERO1 for the visualization\, management\, and sharing of biological microscopy images\, SciLifeLab OMERO will offer active data storage connected to HPC resources. \n\n\n\nSession 2 \n\n\n\n\nAI-Ready Data to enable collaborations across fields\nWorkshop Organizer: Data Centre\, (Arnold Kochari\, Alma Nilsson\, Angela Fuentes Pardo) \n\n\n\nWorkshop Description: Modern machine learning methods open up opportunities for new discoveries\, especially when researchers collaborate across fields. For example\, a biologist may have collected a novel dataset and collaborate with an ML engineer to build new models. In this session\, we will focus on AI-ready data – what it means in practice and how to prepare datasets so they can be shared\, understood\, and reliably used for AI applications. \n\n\n\nSession 2 \n\n\n\n\nThe Data of Circularity: Governing AI\, Transparency\, and Compliance in the Digital Product Passport (DPP)\nWorkshop Organizer: Selcen Ozturkcan \n\n\n\nWorkshop Description: As the EU introduces the Digital Product Passport (DPP)\, this interactive workshop explores how product data can enable genuine circularity—beyond data-driven greenwashing—across production\, post-production\, and market use. Bringing together perspectives from AI\, cybersecurity\, governance\, and sustainable branding\, the workshop explores the technical and organizational challenges in building trustworthy\, transparent\, and compliant product data systems. \n\n\n\nSession 2 \n\n\n\n\nWhat do I need for successful interdisciplinary research? Education as a collaborative exercise\nWorkshop Organizer: Kristen Schroeder \n\n\n\nWorkshop description: In this interactive workshop we will discuss what makes successful interdisciplinary research\, including trust and leadership\, fostering an environment where mistakes can be made\, and creating a shared working language. Interdisciplinary groups will then create a mock educational experience on a challenging topic to explore how interdisciplinary collaboration in education can prepare young researchers to face global challenges. \n\n\n\nSession 3 \n\n\n\n\nUses and understandings of synthetic data in DDLS domains – a conversation about generation methods and use cases across DDLS\, WASP & WASP-HS\nWorkshop Organizer: Ericka Johnson\, Francis Lee\, Ylva Söderfeldt \n\n\n\nWorkshop Description: Synthetic data can mean widely varying things\, which makes defining and evaluating it difficult. Likewise\, it sometimes misaligns with other values\, like objectivity\, reproducibility and transparency. This workshop will discuss what synthetic data is\, why it is useful\, and what it does to the science it becomes embedded in. We will engage in hands-on\, analogue activities to facilitate collaborative discussion. \n\n\n\nSession 3 \n\n\n\n\nThe Art of Human-AI Collaboration and Teaming Research\nWorkshop organizer: Helena Lindgren \n\n\n\nWorkshop Description: The art of Human-AI Teaming research is discovering and addressing the complications that matter\, which unfold in real practice. New theory\, tools and methods are required to capture the rich multi-agent setting including humans. The workshop is an excellent opportunity to expand on this research as a joint effort across expertise in the broad communities of WASP and WASP-HS. \n\n\n\nSession 3 \n\n\n\n\nWhat Is Adaptation? Bridging Life Sciences\, Neuro-AI\, and Machine Psychology\nWorkshop Organizer: Robert Johansson \n\n\n\nWorkshop Description: Adaptation is central in biology\, neuroscience\, psychology\, and AI – but often means different things. In this workshop\, we compare key definitions and methods\, from behavioral change to predictive learning and algorithmic information dynamics. Participants will map shared questions\, clarify key research gaps\, and identify promising cross-disciplinary directions at the intersection of society\, life sciences\, and technology. \n\n\n\nSession 3 \n\n\n\n\nWASP Research Arenas – A Bridge Between Industry and Academia\nWorkshop Organizer: Ola Engkvist \n\n\n\nWorkshop Description: The workshop aims to provide an introduction to the WASP Research Arenas (WARA)\, especially for researchers within DDLS and WASP‑HS who may not yet be familiar with WARA. WARA functions as a bridge between research and industry and offers increased research impact and potential for industrially significant breakthroughs. It provides a unique opportunity to validate and refine scientific theories in real‑world settings relevant to industry. \n\n\n\nSession 3 \n\n\n\n\n\n\n\n\nIf you’re already in Uppsala for the conference\, don’t miss the chance to start your visit with Testa Center’s Demo Day on May 6. This hands‑on event offers researchers a close look at how digital technologies are reshaping modern bioproduction. \n\n\n\nOrganized within WARA Medicine\, the Demo Day brings together researchers interested in exploring new methods\, exchanging insights\, and identifying opportunities for collaboration in the bioprocessing domain. It’s a great opportunity to see how your technical\, scientific\, or computational expertise can contribute to the next generation of bioprocess innovation. \n\n\n\nWhen: May 6Where: Testa Center\, Danmarksgatan 11\, 75323 UppsalaRead more and register
URL:https://www.scilifelab.se/event/research-opportunities-at-the-intersection-of-society-life-sciences-and-technology/
LOCATION:Uppsala Konsert & Kongress\, Vaksala torg 1\, Uppsala\, 75331\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2025/11/DDLS.jpg
ORGANIZER;CN="Data-Driven Life Science @ SciLifeLab":MAILTO:ddls@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20260511T120000
DTEND;TZID=Europe/Stockholm:20260511T160000
DTSTAMP:20260430T191058
CREATED:20260225T223013Z
LAST-MODIFIED:20260328T154154Z
UID:10001766-1778500800-1778515200@www.scilifelab.se
SUMMARY:SciLifeLab Uppsala Spring Mini-Symposium
DESCRIPTION:Dynamic Landscapes: Mapping Interactions from Molecules to Ecosystems\n\n\n\nWe’re thrilled to invite you to our second SciLifeLab Uppsala Spring Mini-Symposium in Navet\, BMC\, on the 11th of May. \n\n\n\nA half-day meeting dedicated to inspiring scientific talks\, meaningful interactions\, and collaborative discussions. (Spots are limited to 90p.) \n\n\n\nPhD students and postdocs are especially encouraged to attend and present their work – it’s an excellent opportunity to expand your network and spark future collaborations! \n\n\n\nEVENT TIME & DATE: 11th of May 2026\, 12:00 – 16:00 with mingle and poster session afterwards. \n\n\n\nORGANIZER: SciLifeLab and DDLS Fellow and Alumni groups \n\n\n\nProgram\n\n\n\n12:00-12:45Network Lunch12:45-14:15Session 1: Cellular & Molecular LandscapesBurçin Yildirim (James lab)Ioanna Tsiara (Globisch lab)Paarkavi Udayakumar (Teleki lab)Aline Pfefferle (new SciLifeLab fellow)14:15-14:45Coffee break14:45-16:00Session 2: Environmental & Evolutionary LandscapesIoannis Mystakidis (Tarbier lab)Pascal Milesi (SciLifeLab fellow)Elena Quintero (Braga lab\, SLU)Flash talks16:00-17:00Poster session and mingle\n\n\n\n \n\n\n\nRegistration\n\n\n\nThe seats are limited to 92p.  \n\n\n\nThe registration will close on April 28. Please respect the deadline. After the deadline\, we can not accommodate any special food requirements and the order for catering is fixed. \n\n\n\nWaiting list: 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: Since seats are limited\, please cancel your registration if you are unable to attend. \n\n\n\nRegister here\n\n\n\n \n\n\n\n\nImproved 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/scilifelab-uppsala-spring-mini-symposium-2/
LOCATION:Navet\, SciLifeLab Uppsala\, SciLifeLab Uppsala\, BMC C11\, Husargatan 3\, Uppsala\, 75237\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2025/10/Navet-Uppsala-entrance-scaled.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20260817T080000
DTEND;TZID=Europe/Stockholm:20260819T170000
DTSTAMP:20260430T191058
CREATED:20260420T114855Z
LAST-MODIFIED:20260427T152652Z
UID:10001807-1786953600-1787158800@www.scilifelab.se
SUMMARY:4th BioSyst.EU Meeting 2026
DESCRIPTION:The 4th BioSyst EU meeting is taking place in Uppsala Sweden\, 17th – 19th August 2026\, and will be organised by the Swedish Systematics Association. The 3-day conference celebrates European systematics and biodiversity research at its origin. An excursion directly after the conference rounds off the program with keynotes and symposia.  \n\n\n\nThe Conference is supported by the KAW initiative DDLS Evolution and Biodiversity research area. Contact DDLS Fellow Tobias Andermann and the DDLS Expert Group.  \n\n\n\nThis conference will bring the European Biodiversity and Systematics community together at its Linnaean origin in Uppsala. \n\n\n\nKeynote speakers\n\n\n\nThere will be three main keynote speakers with internationally leading research profiles: Sandra Knapp\, Fredrik Ronquist and Paul Hebert. The latter is the father of DNA barcoding\, coming all the way from Canada. The journal Systematics and Biodiversity will also publish a special collection of articles arising from the conference! \n\n\n\nProgram\n\n\n\nDuring the conference\, there will be the following symposia: \n\n\n\n\nTrait Evolution\, Lineage Diversification and Historical Biogeography in a Big Data era. Confirmed speaker: Isabel Sanmartín\, Madrid.\n\n\n\nEvolution in Deep Time: Fossils\, Phylogenies\, and Reconstructing the History of Life\n\n\n\nAI and Automated Species Identification: Assets and Drawbacks\n\n\n\nAdvances in Museomics for Biosystematics and Taxonomy\n\n\n\nAre biodiversity and ecosystems the same thing?\n\n\n\nNatural History Collections and their actors\n\n\n\nTaxonomic treatments and revisions and their accessibility in biodiversity databases\n\n\n\nData-driven research in evolution and biodiversity\n\n\n\nEnvironmental DNA for species discovery and biodiversity inventory\n\n\n\nSpeciation\, Adaptation and Phylogeography: Microevolutionary Processes Shaping Biodiversity\n\n\n\nOpen session\n\n\n\n\nEarly bird before May 31\n\n\n\nRegistration is open and it costs only 1 500 SEK for students registering before 31 May (BSc\, MSc and PhD students). For everyone else the early-bird price is 2 500 SEK. \n\n\n\nEarly-career Day\n\n\n\nThere will be an early-career event the day before\, free of charge – we have two international speakers this time\, Seraina Klopfstein coming from Switzerland and Pablo Muñoz-Rodríguez coming from Spain. The early career event will be followed by some mingling and discussions\, and dinner/beers. So don’t miss out! \n\n\n\nImportant dates!\n\n\n\nAbstract submission ends 31st May 2026Early bird registration ends 31st May 2026Registration ends 17th July 2026 \n\n\n\nMore information and Registration\n\n\n\nRegistration and event website: https://www.trippus.net/BioSyst2026 \n\n\n\nAbout BioSyst EU: https://biosyst.eu/
URL:https://www.scilifelab.se/event/4th-biosyst-eu-meeting-2026/
LOCATION:Ekonomikum\, Kyrkogårdsgatan 10\, 753 12\, Uppsala
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2026/04/BioSystEU_2026_Poster_small-scaled.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20261012T120000
DTEND;TZID=Europe/Stockholm:20261014T120000
DTSTAMP:20260430T191058
CREATED:20260414T090237Z
LAST-MODIFIED:20260414T092140Z
UID:10001802-1791806400-1791979200@www.scilifelab.se
SUMMARY:WASP-HS & DDLS: Interdisciplinary Workshop
DESCRIPTION:WASP-HS & DDLS: Joint Workshop at Sigtunastiftelsen\, 12–14 October \n\n\n\nThis interdisciplinary workshop brings together a carefully selected group of 25 researchers from diverse fields to exchange perspectives on the ethical\, legal\, and social dimensions of data-intensive research in the life sciences. The conversation is not limited to lawyers and ethicists\, but also includes researchers whose work both shapes and is shaped by these governance frameworks.  \n\n\n\nThe aim is to bring together diverse expertise to explore key challenges\, frame shared research questions\, and spark new interdisciplinary collaborations. \n\n\n\nWorkshop Focus\n\n\n\n→ Analyze governance structures and how they shape data-intensive research in precision medicine\, epidemiology\, infection biology\, biodiversity\, and molecular life sciences→ Identify key legal\, regulatory\, and ethical challenges in data-driven life sciences\, with particular attention to the experiences of scientists working with these issues in practice→ Promote meaningful dialogue across disciplines→ Develop new interdisciplinary research initiatives \n\n\n\nDuration\n\n\n\n12 OctoberArrival and opening from lunch onwards \n\n\n\n13 OctoberFull day of sessions \n\n\n\n14 OctoberClosing and departure ending with lunch  \n\n\n\nExpression of Interest\n\n\n\nApply by 4 May to secure your spot. This workshop is open to researchers from both the WASP-HS and DDLS communities. Spots are limited to 25 participants\, so make sure to fill in the Expression of Interest form to get a chance to attend. \n\n\n\nApply here \n\n\n\nOrganizers\n\n\n\nLianne Colonna\,WASP-HS\, Stockholm UniversityYana Litins’ka\, WASP-HS\, Lund UniversityHeidi Howard\, DDLS\, Chalmers University of TechnologyFrancis Lee\, WASP-HS\, Södertörn UniversityUlrika Wallenquist\, DDLS\, Uppsala UniversityBodil Formark\,WASP-HS\, Södertörn University
URL:https://www.scilifelab.se/event/wasp-hs-ddls-interdisciplinary-workshop/
LOCATION:Sigtunastiftelsen\, Manfred Björkquists allé 4\, Sigtuna\, 193 31\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2025/11/DDLS.jpg
ORGANIZER;CN="Data-Driven Life Science @ SciLifeLab":MAILTO:ddls@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20261109T113000
DTEND;TZID=Europe/Stockholm:20261110T123000
DTSTAMP:20260430T191058
CREATED:20260413T092109Z
LAST-MODIFIED:20260413T092110Z
UID:10001800-1794223800-1794313800@www.scilifelab.se
SUMMARY:DDLS Annual Conference 2026
DESCRIPTION:The Data-Driven Life Science (DDLS) program\, funded by the Knut and Alice Wallenberg Foundation (KAW)\, warmly welcomes you to the 5th DDLS Annual Conference\, taking place November 9-10\, 2026\, at Aula Magna\, Frescati Campus\, Stockholm. \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 network lunch and registration on November 9 (11:30–12:30) and concludes with a networking lunch on November 10 (12:30–13:30). \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.
URL:https://www.scilifelab.se/event/ddls-annual-conference-2026/
LOCATION:Aula Magna\, Frescativägen 6\, Stockholm\, 114 18 Stockholm\, Sweden
CATEGORIES:Event
ORGANIZER;CN="SciLifeLab Event":MAILTO:events@scilifelab.se
END:VEVENT
END:VCALENDAR