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DTSTART;TZID=Europe/Stockholm:20240202T100000
DTEND;TZID=Europe/Stockholm:20240202T110000
DTSTAMP:20260502T014853
CREATED:20231207T150409Z
LAST-MODIFIED:20240122T160625Z
UID:10001063-1706868000-1706871600@www.scilifelab.se
SUMMARY:Practical intro to GPU programming in Python and Julia
DESCRIPTION:This event is part of the Tools for AI/ML research in life sciences event series arranged by the SciLifeLab Data Centre. This webinar is organized in collaboration with the EuroHPC National Competence Centre Sweden (ENCCS) as well as the National Supercomputer Centre\, LiU. \n\n\n\nTitle: Practical intro to GPU programming in Python & Julia \n\n\n\nSpeaker: Yonglei Wang\, PhD\, Research Software Engineer and HPC application expert\, ENCCS \n\n\n\nWhere and when: February 2\, 2024 at 10:00-11:00 Stockholm time\, online. Registration is open till February 2 at 9:00.  \n\n\n\nAbstract: Availability of Graphics Processing Units (GPUs) has transformed the way we work with machine learning and data science challenges in life sciences. The parallel processing capabilities of GPUs have allowed training of ever more complex models\, allowing researchers to analyze large biological datasets with unprecedented efficiency. However\, in order to make use of the potential that GPUs offer we need be able to write fitting machine learning model code and analysis pipelines. In this webinar ENCCS will present some practical tips about what to keep in mind and how to optimize your code when running analyses on GPU hardware. This webinar will be most useful to researchers who already work with large datasets and would like to improve their understanding of how to work with GPUs. At the end\, the participants will also be given an overview of online materials and in-person courses where researchers can learn about this topic in depth.  \n\n\n\nRegister to join the event\n\n\n\nMore about the event series: \n\n\n\nTools for AI/ML research in life sciences is an event series by the SciLifeLab Data Centre aimed at life science researchers who use machine learning methods in their work. The goal of the events in this series is to provide introductions to different tools for ML research but also to foster discussions around our practices and how they can be improved. The events takes place virtually (over Zoom) and are open to researchers in Sweden and beyond. Each event is scheduled for 60 minutes\, consisting of a talk and an extended discussion. Follow the page of the event series to learn about future seminars. \n\n\n\nFor questions about the events please contact the organizing team by emailing  serve@scilifelab.se  \n\n\n\n \n\n\n\nScientific lead: Prof. Ola Spjuth\, SciLifeLab Data Centre and Uppsala University and DDLS \n\n\n\nContact information: serve@scilifelab.se
URL:https://www.scilifelab.se/event/practical-intro-to-gpu-programming-in-python-and-julia/
LOCATION:Online event via Zoom
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20240207T080000
DTEND;TZID=Europe/Stockholm:20240209T170000
DTSTAMP:20260502T014853
CREATED:20230516T145922Z
LAST-MODIFIED:20240206T113507Z
UID:10000893-1707292800-1707498000@www.scilifelab.se
SUMMARY:SciLifeLab International Advisory Board site visit
DESCRIPTION:SciLifeLab International Advisory Board will visit SciLifeLab to evaluate the operations and advise on how we can develop even further. \n\n\n\nThe International Advisory Board (IAB) is an advisory body to the Board of SciLifeLab and consists of expert members operating outside of Sweden. The SciLifeLab Board appoints the IAB Chair and members. The IAB shall mainly contribute to SciLifeLabs’ strategic development regarding research infrastructure and scientific direction and meets every two years to report to the SciLifeLab Board.  \n\n\n\nSciLifeLab biannually produces reports for the IAB visit. The reports from 2021 and 2019 can be found here. The report for 2024 has been distributed as a printed report and a digital file for the IAB members. The participants at the IAB site visit have been invited to the Nextcloud folder\, where the written material (report) and the Program can be found. The report to the IAB will be published on the SciLifeLab website after the site visit. \n\n\n\nThe IAB evaluation is reported to the SciLifeLab Board.  \n\n\n\nFor questions or more information about the IAB site visit\, don’t hesitate to get in touch with Project leader Erika Bergqvist Erkstam\, erika.erkstam@SciLifeLab.uu.se or 070-425 03 87. \n\n\n\n\n\n\n\nDownload Program\n\n\n\nIAB-visit-2024-program_ver1.2Download\n\n\n\nShort program\n\n\n\nFeb 6\n\n\n\nArrival in Uppsala\, Sweden \n\n\n\n18:45 Internal IAB Preparation Meeting \n\n\n\n19:15 IAB Preparation Meeting with SciLifeLab Directors \n\n\n\nFeb 7\n\n\n\n08:00Transport from the hotel08:30SciLifeLab Recent Developments and Ongoing PlansSession 1: Provide excellent and impactful life science infrastructure10:35Infrastructure: Future Strategies and Organization11:30Lunch12:15Flash talks: Infrastructure PlatformsSession 2: Facilitate the transformation of life science data into knowledge14:30Data-Driven Life Science programSession 3: Attract scientific excellence and provide advanced training16:30SciLifeLab Research Community17:45Closed session with the Board19:15Dinner with the SciLifeLab Board\, Uppsala University Main Building\n\n\n\nFeb 8\n\n\n\n08:30Transport from the hotelCont. Session 3: Attract scientific excellence and provide advanced training09:00Training Hub and strategy09:45IAB SciLifeLab Fellows meeting11:15IAB DDLS Fellows meeting12:30LunchSession 4: Strengthen capabilities\, research communities and global partnerships13:30Capabilities15:00SciLifeLab National Sites16:30SciLifeLab Campus Solna17:15Genomic Medicine Sweden17:45IAB internal discussion19:00Dinner\n\n\n\nFeb 9\n\n\n\n08:00Transport from the hotelSession 5: Support innovation and bridge-building for the benefit of society08:30Innovation\, Collaboration and Partnerships09:30National organization and support functions11:00Future perspectives and opportunities12:00General discussion time 12:30Working closed lunch\, followed by writing and discussion14:00Initial feedback and questions14:30Additional writing session15:00End of IAB site visit updated: 2023-12-11\n\n\n\nIAB members\n\n\n\nRuedi Aebersold\, ETH  Zürich\, Switzerland\nRuedi Aebersold is a Swiss/Canadian scientist trained at the Biocenter\, University of Basel\, Switzerland. After postdoctoral research at Caltech he was on the faculties of the University of British Columbia in Vancouver and the University of Washington in Seattle and co-founded\, with Lee Hood and Alan Aderem\, the Institute for Systems Biology in Seattle. In 2004 he joined ETH Zürich to establish the Institute of Molecular Systems Biology. He has co-founded several companies and holds multiple public service appointments. The group’s work was recognized with numerous awards including the Biemann medal of ASMS\, the Paracelsus prize of the SCS\, the Otto Naegeli Prize\, the Thomson medal of IMSF and the HUPO achievement award and the Marcel Benoist Swiss Science Prize\, the most prestigious science award in Switzerland. The group’s publications have been cited more than 132.000 times and reached an h-factor of 174 (WoS) and 203.000 times with h-factor 218 in Google Scholar (Oct 2023). \n\n\n\nThe research focus of the Aebersold group was the proteome. The group pioneered several widely used techniques and generated a range of open access/open source software and statistical tools that have contributed to making proteomic research results more transparent\, reproducible and accurate. \n\n\n\nRuedi Aebersold entered emeritus status in 2021 and now serves as a member of the board of trustees of several foundations that support basic and translational life science research.  \n\n\n\n\nSøren Brunak\, Novo Nordisk Foundation Center for Protein Research\, University of Copenhagen\, Denmark\nSøren Brunak\, Ph.D.\, is professor of Disease Systems Biology and Research Director at the University of Copenhagen. He is a pioneer in the application of machine learning techniques to the analysis of biological sequences. His group combines molecular level systems biology data with analysis of healthcare sector phenotypic data (electronic patient records\, registry information and biobank questionnaires) to understand multimorbidities and treatment related disease correlations as temporal disease trajectories. This stratifies patients not only from their genotype\, but also from the clinical descriptions in their medical records and is particularly relevant in the context of the precision medicine agenda. \n\n\n\n\nJo Bury\, VIB\, Belgium\nJo Bury is founder and director-emeritus of VIB\, the Flanders Institute for Biotechnology. He was managing director of VIB in the period November 1995-March 2022. VIB is a life science research institute where 1.800 scientists and technicians study the molecular mechanisms of growth and development of different organisms (human beings\, plants\, micro-organisms) in normal (health) vs abnormal (disease\, stress) conditions. The focus is strategic basic research with potential applications (in the long term) in molecular medicine and molecular farming. VIB is a multisite institution\, integrated within the campuses of the universities of Ghent\, Leuven\, Brussels\, Antwerp and Hasselt\, based on a joint venture agreement of VIB with these 5 partner universities. Through the performance of its scientists\, VIB has become a center of excellence in life science research in Europe. \n\n\n\nJo Bury has a Master’s degree in Pharmacy and is PhD in Pharmaceutical Sciences (University of Gent). He obtained an MBA degree at the Vlerick School for Management in Gent. After performing scientific research in the field of atherosclerosis during several years\, he has made a career in science policy. He previously held the post of Operational Director of VLAB (Flanders’ Action Programme on Biotechnology) and science advisor at federal and regional granting bodies (IWONL-IRSIA\, IWT). \n\n\n\nOutside VIB Jo Bury has been a board member of different research intensive companies (Seghers Genetics and Nutrition NV\, Vitamex NV\, Oystershell NV)\, research institutions (Temasek Life Sciences Laboratories (Singapore)\, ITG)\, and granting bodies (Hercules\, EIC\, FWO). He served / serves on SABs of different research centers in life sciences s.a. IIMCB (Warsaw)\, HCEMM (Budapest)\, IGC (Lisbon)\, MDC (Berlin)\, CRG (Barcelona)\, SciLife (Stockholm) and DRI (London). \n\n\n\n\nJanet K. Jansson\, Pacific Northwest National Laboratory\, USA\nJanet K. Jansson is a Chief Scientist (Emeritus) and a Laboratory Fellow at the Pacific Northwest National Laboratory (PNNL). Her research uses molecular tools “omics” to study microorganisms in a variety of habitats – ranging from soil to the human gut to outer space. Jansson is a Fellow of the American Academy of Microbiology\, the Washington State Academy of Science and the American Association for the Advancement of Science. She also has an Honorary Doctorate from the University of Helsinki\, Finland. She has authored more than 250 publications and is one of the most highly cited researchers in the world. \n\n\n\n\nSirpa Jalkanen\, University of Turku\, Finland\nAcademician Sirpa Jalkanen\, MD\, PhD is Professor at the Medical Faculty\, University of Turku and Director of a National Flagship\, InFLAMES. She has published more than 380 peer-reviewed papers and has more than 10 patents on different discoveries in the fields of inflammation and cancer. She is a member of EMBO and Academia Europaea and has received several prizes/honours such as Datta Medal (from FEBS)\, major medical prizes: Anders Jahre\, and Äyräpää\, innovator prizes: 2nd European Women Innovator and the Finnish Pharma Industry Prizes. She has several positions of trust. She is a member/vice chair/chair of the boards in three big Finnish Foundations financing research and a board member of the Association of Finnish Foundations. In addition\, she is a co-founder of BioTie Therapies and Faron Pharmaceuticals. \n\n\n\n\nIain Mattaj\, Human Technopole Foundation \, Italy\nProfessor Iain Mattaj was born in St. Andrews\, Scotland. He attended Edinburgh University\, Scotland and after completing his undergraduate degree in Biochemistry (honors)\, he obtained his Ph.D. degree from the University of Leeds\, England. Following his Ph.D.\, Iain carried out postdoctoral research out at the Friedrich Miescher Institute\, Switzerland\, then at the Biocentre\, University of Basel\, Switzerland.  In 1985\, he joined EMBL as a Group Leader at the Heidelberg laboratory. He became Coordinator of the Gene Expression Unit at EMBL in 1990 before being promoted to the position of Scientific Director in 1999. Iain was appointed Director General of EMBL in May 2005 and remained in post till the end of 2018. He then moved to Italy to launch the Human Technopole Foundation (HT)\, a government-funded foundation focusing on research on human health and wellbeing. He grew the organization from 14 staff to 390 including 273 researchers in just over four years. This included construction and refurbishment of 20\,000 m2 of lab and office space\, organized and mainly carried out during the COVID pandemic. HT is now producing high-quality research. \n\n\n\nIn addition to his leadership success at EMBL and HT\, Iain’s own research achievements have been considerable and varied. His early work centered on a group of ribonucleoprotein (RNP) particles that function in the processing of messenger RNA precursors. His analyses of these RNPs spanned a variety of topics including transcription of the RNA components\, RNA-protein interactions\, function of the RNPs in messenger RNA production and assembly of the RNPs from their component parts in vivo. This work led to numerous studies of transport of RNA and proteins between the cell nucleus and cytoplasm. Iain’s group identified numerous factors and mechanisms involved in this important process. Iain’s more recent work has demonstrated the critical role of the Ran GTPase in regulating mitotic events including spindle assembly\, nuclear pore complex formation and nuclear envelope assembly. \n\n\n\nHis prominent standing in the field was underlined by his election as President of the RNA Society and his award of the prestigious Louis-Jeantet Prize for Medicine in 2001.In addition\, he has received numerous other awards and honorary lectureships\, including the FEBS Anniversary Prize\, Caledonian Research Foundation – Royal Society of Edinburgh Award\, Italian Chemical Society Award\, Feldberg Foundation Prize. He is Honorary Professor of the Faculty of Bio-Sciences of the Ruprecht-Karls-Universität Heidelberg\, and Honorary Doctor of the Universities of Edinburgh\, Dundee\, Umea and Leeds.His scientific contributions have also been recognized by his election as a Fellow of the Royal Society (London)\, Foreign Associate of the National Academy of Sciences (USA)\, Foreign Member of the Royal Swedish Academy of Science\, Fellow of the Royal Society of Edinburgh\, Member of Academia Europea\, Foreign Honorary Member of the American Academy of Arts and Science\, Member of the Deutsche Akademie der Naturforscher (Leopoldina)\, appointed Trustee of the Darwin Trust\, appointed Curator of the Lautenschläger Research Prize\, appointed Member of the Life Sciences Search Committee for the Körber Prize\, and appointed Member of the Search Committee for the Louis-Jeantet Prize for Medicine. He was awarded the German Cross of Merit (Bundesverdienstkreuz) in 2021. \n\n\n\nHe is a member of many national and international scientific advisory boards and panels\, including periods as chair of EIROforum (European Intergovernmental Research Organisations)\, the Senior Awards Advisory Board of the Wellcome Trust\, Senior Review Board of the HHMI\, Chair of the ISTA executive Board\, Chair of the Institut Curie ISAB\, Chair of the Darwin Trust of Edinburgh Board of Trustees\, etc. etc. He is a member of the European Molecular Biology Organization (EMBO) and helped make The EMBO Journal a highly successful international scientific journal\, acting as Executive Editor from 1990 to 2004. \n\n\n\n\nSvante Pääbo\, Max Planck Institute for Evolutionary Anthropology\, Germany\nSvante Pääbo has developed techniques that allow DNA sequences from archaeological and paleontological remains to be determined. His research group has determined high-quality genome sequences from Neanderthals and discovered Denisovans\, a previously unknown hominin group in Asian. They have shown that both Neanderthals and Denisovans contributed DNA to present-day humans and that these contributions have physiological and medical consequences today. Pääbo also works on the comparative and functional genomics of modern and archaic humans and apes. \n\n\n\nHe is a Director at the Max-Planck Institute for Evolutionary Anthropology in Leipzig\, Germany\, and an Adjunct Professor at the Okinawa Institute of Science and Technology\, Japan. \n\n\n\n\nKjetil Tasken\, Univ. of Oslo\, Oslo University Hospital\, Norway\nProfessor Kjetil Taskén has been key in building Norway’s national cancer precision medicine initiative and now coordinates the Cancer Mission PRIME-ROSE project for DRUP-like clinical trials across Europe. He authors >300 publications and is an inventor of >20 patents (h-index =65). He won the King Olav V’s Prize for Cancer Research in 2016\, and the University of Oslo Innovation Prize in 2023 and is Vice-President of the Norwegian Academy of Science and Letters. Current research is in tumor immune evasion mechanisms and functional precision medicine for different solid and blood cancers. \n\n\n\n\nSarah A. Teichmann\, Wellcome Sanger Institute\, University of Cambridge\, UK\nSarah did her PhD at the MRC Laboratory of Molecular Biology\, Cambridge\, UK and was a Beit Memorial Fellow at University College London. She started her group at the MRC Laboratory of Molecular Biology in 2001. In 2013\, she moved to the Wellcome Genome Campus where her group was joint between the EMBL-European Bioinformatics Institute and the Wellcome Sanger Institute\, and in 2016 was appointed Head of the Cellular Genetics programme at the Sanger. Sarah’s laboratory develops and applies cell atlas technologies to decipher human tissue architecture\, with a particular focus on how cellular diversity is generated in the immune system and through development. Sarah is co-founder and co-leader of the international Human Cell Atlas consortium which aims to create reference maps for cells across all human tissues and has grown to include over two thousand members across the world. Sarah is also co-director of the CIFAR Research Programme ‘The Multiscale Human’. Her work has been recognised by numerous awards\, including the EMBO Gold Medal\, Genetics Society Mary Lyons Award\, Biochemical Society GlaxoSmithKline Award\, the FEBS|EMBO Women in Science Award among others. She is an EMBO Member\, ISCB Fellow\, and Fellow of the Academy of Medical Sciences and Royal Society.
URL:https://www.scilifelab.se/event/scilifelab-international-advisory-board-site-visit/
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2022/06/Navet-fasad-innegård-scaled.jpg
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BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20240213T094500
DTEND;TZID=Europe/Stockholm:20240213T153000
DTSTAMP:20260502T014853
CREATED:20240205T094820Z
LAST-MODIFIED:20240212T154340Z
UID:10001142-1707817500-1707838200@www.scilifelab.se
SUMMARY:Karolinska Institutet DDLS Fellows – Public research seminars with candidates
DESCRIPTION:Welcome to attend research seminars presented by candidates for the following positions:1. DDLS Fellow in Data-Driven Epidemiology and Biology of Infection2. DDLS Fellow in Data-Driven Precision Medicine and Diagnostics \n\n\n\nPart 1. 13 February 2024: DDLS Fellow in Data-Driven Epidemiology and Biology of Infection\n\n\n\nNAMECURRENT AFFILIATIONTIMESupriya KhedkarNA10:00-10:20Andreas LuttensMassachusetts Institute of Technology10:20-10:40Shilpa RayKarolinska Institutet10:40-11:00\n\n\n\nPart 2. 13 February 2024: DDLS Fellow in Data-Driven Precision Medicine and Diagnostics\n\n\n\nNAMECURRENT AFFILIATIONTIMEKimmo KartasaloKarolinska Institutet13:00-13:20David MarleviMassachusetts Institute of Technology and Karolinska Institutet13:20-13:40Amirata Saei DibavarUniversity of Basel and Karolinska Institutet13:40-14:00Alexa McIntyreUniversity of Zurich14:30-14:50Antônio Horta RibeiroUppsala University14:50-15:10Daniel HageyKarolinska Institutet15:10-15:30
URL:https://www.scilifelab.se/event/karolinska-institutet-ddls-fellows-public-research-seminars-with-candidates/
LOCATION:Online event via Zoom
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20240221T130000
DTEND;TZID=Europe/Stockholm:20240221T163000
DTSTAMP:20260502T014853
CREATED:20240205T092304Z
LAST-MODIFIED:20240207T115231Z
UID:10001139-1708520400-1708533000@www.scilifelab.se
SUMMARY:DDLS Fellow candidates seminar at the Swedish Museum of Natural History (NRM)
DESCRIPTION:The Swedish Museum of Natural History (NRM) is hiring a tenure-track researcher in Data-Driven Life Science (DDLS)\, within the field of biodiversity and evolution. \n\n\n\nThe research position is funded by the SciLifeLab and Wallenberg National Program for Data-Driven Life Science (DDLS)\, which is a 12-year initiative funded with a total of 3.1 billion SEK from the Knut and Alice Wallenberg Foundation (for more details\, see www.scilifelab.se/data-driven). The DDLS Fellows will be recruited as independent group leaders at the respective host institution\, and will have the opportunity to link up with other local research groups as well as the within the national DDLS programme. \n\n\n\nAs a part of the recruitment process\, the top-ranked candidates for the NRM position will give digital seminars that are open for the general public.  \n\n\n\nFebruary 21 2024\, 13:00 – 16:30 \n\n\n\nSchedule of presentations: \n\n\n\n13.00-13.30Allison HsiangTeaching an old foram new tricks: Illuminating biodiversity patterns and morphological evolution in deep time using artificial intelligence13.30-14.00Moritz LürigHow AI-based computer vision can inform us about the diversity and evolution of organisms14.00-14.30Viktor SenderovHarnessing Human Intelligence for Biodiversity Informatics15.00-15.30Mariana Pires-BragaBiotic interactions: teasing apart evolutionary processes from data biases15.30-16.00Jose CercaEvolution of genetic diversity in insular lineages: A genomics data-driven approach16.00-16.30Mette LillieBiodiversity conservation in the face of host-pathogen evolutionary dynamics\n\n\n\nOrganizers: NRM DDLS Recruitment Committee
URL:https://www.scilifelab.se/event/ddls-fellow-candidates-seminar-at-the-swedish-museum-of-natural-history-nrm-2/
LOCATION:Online event via Zoom
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20240226T151500
DTEND;TZID=Europe/Stockholm:20240226T161500
DTSTAMP:20260502T014853
CREATED:20240207T162516Z
LAST-MODIFIED:20240207T162519Z
UID:10001149-1708960500-1708964100@www.scilifelab.se
SUMMARY:[The Svedberg seminar] - Spatial biodiversity modeling with remote sensing and AI
DESCRIPTION:Tobias Andermann \n\n\n\nAssistant Professor\, DDLS fellowUppsala University  \n\n\n\n \n\n\n\n\n\n\n\nBio\n\n\n\nTobias Andermann is a biodiversity researcher dedicated to providing data and computatio- nal tools for combating the global biodiversity crisis. His group\, the Biodiversity Data Lab\, is working on the intersection of molecular biology\, spatial ecology\, and machine learning\, with the mission to provide a more comprehensive view on the distribution of biodiversity\, including hidden diversity of inconspicuous and even undescribed species through the use of environmental DNA. \n\n\n\n \n\n\n\nSpatial biodiversity modeling with remote sensing and AI\n\n\n\nThere is an ever-increasing need for developing standardized ways of quantifying the biodiversity value of a site. This need arises from international and local policies (e.g. the COP15 UN Biodiversity agreement) as well as from the independent investments of companies world-wide in developing biodiversity-positive profiles\, motivated by their public perception. This momentum provides an unprecedented opportunity to efficiently protect biodiversity on a large scale to turn around the alarmingly negative biodiversity trends of the recent decades and centuries. While individual biodiversity assessments for specific sites can be done through targeted inventories\, either through taxonomic experts or increasingly through the use of environmental DNA\, we also need ways of scaling up such biodiversity evaluations to larger scales\, covering entire regions or countries. AI models provide a unique tool to leverage complex biodiversity and remote sensing data to make predictions of biodiversity on large spatial scales\, while at the same time providing high spatial resolution. In this talk I will present some of these models from my ongoing research and discuss their utility\, as well as their current shortcomings and limitations. \n\n\n\n \n\n\n\n\n\n\n\nHost: Joëlle Rüegg joelle.ruegg@ebc.uu.se\, UU
URL:https://www.scilifelab.se/event/the-svedberg-seminar-tobias-andermann/
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
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