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DTSTART;TZID=Europe/Stockholm:20241119T150000
DTEND;TZID=Europe/Stockholm:20241119T160000
DTSTAMP:20260404T010044
CREATED:20241029T205929Z
LAST-MODIFIED:20241030T065410Z
UID:10001390-1732028400-1732032000@www.scilifelab.se
SUMMARY:When viral RNA met the cell: a story of host-virus interactions
DESCRIPTION:Speaker: Professor Alfredo Castello \n\n\n\nBiography\n\n\n\nAlfredo is a biologist by training and holds a PhD in Molecular Biology from the Universidad Autónoma de Madrid. He completed his postdoctoral training at the EMBL in Heidelberg\, where later he became a staff scientist. In 2014\, he was recruited as a Principal Investigator in the Department of Biochemistry at the University of Oxford. Later\, in 2020\, he joined the MRC-University of Glasgow Centre for Virus Research (CVR) as a Senior Lecturer and since 2022\, he became Professor in Systems Virology at the same institution. In 2021\, Dr. Castello was awarded an ERC Consolidator Grant. Additionally\, he has received funding from several prestigious agencies in the UK and the EU\, including the Wellcome Trust\, the Medical Research Council (both a Career Development Award and Research grant)\, and Horizon Europe. As a highlight of his work\, he set a fundamental stepstone towards the elucidation of the cellular RNA-binding proteome\, which has opened many new avenues of research in the RNA community. He recently applied his methodology to virus infection\, discovering a new universe of host-virus interactions controlling infection. \n\n\n\n\n\n\n\nAbstract\n\n\n\nRNA is a central molecule in RNA virus biology acting not only as a messenger RNA\, but also for storage of the genetic information as a genome. Over the last two decades it has become apparent that viral RNA is a hub for key host-virus interactions. For example\, viral genomes are too restricted in size to encode many of the molecular machineries required to metabolise the viral RNA. Just to provide some perspective\, a typical RNA virus would encode ~10 proteins in average\, while the ribosome\, the machinery required for protein synthesis\, is composed by over 80 proteins and 3 ribosomal (r)RNAs. The lack of these critical cellular machineries makes viruses reliant on host resources\, stressing the importance of cellular RNA-binding proteins (RBPs) contributing to the metabolism of viral RNAs. The cell also possess an arsenal of RBPs with the role of sensing viral RNAs and triggering the antiviral response. Unfortunately\, the methods to study these host-virus interactions globally and with molecular details have only started to emerge. My talk will elaborate in the application of these methodologies while exploring two research lines derived from our research: i) why cellular mRNAs are often degraded as a consequence of infection and ii) why a subset of nuclear RBPs travel to the cytosol upon infection with cytoplasmic viruses. \n\n\n\n\n\n\n\nHost: Eduardo Sagredo Campos
URL:https://www.scilifelab.se/event/when-viral-rna-met-the-cell-a-story-of-host-virus-interactions/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2023/10/Campus-solna-seminar-picture.jpg
ORGANIZER;CN="Spotlight Seminar Series":MAILTO:events@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241121T120000
DTEND;TZID=Europe/Stockholm:20241121T130000
DTSTAMP:20260404T010044
CREATED:20240708T145004Z
LAST-MODIFIED:20241030T103112Z
UID:10001304-1732190400-1732194000@www.scilifelab.se
SUMMARY:Campus Solna Seminar Series: Greta Gudoityte & Pablo Carravilla
DESCRIPTION:Welcome to join the Campus Solna Seminar Series – an initiative to promote the fantastic science ongoing at Campus Solna and hopefully forge more internal communication and collaboration between within Campus Solna. The format consists of two 20 min talks (One speaker from the Alpha-building and one from the Gamma-building respectively)\, with an additional 5 min of questions. Presentation of ongoing (unpublished) projects is strongly encouraged. \n\n\n\nThe seminars are held Thursdays 12:00-13:00. You can bring your lunch to the seminar. \n\n\n\nPhD students that are attending the Campus Solna Seminar lectures will have the opportunity to gain credits. For the syllabus and instructions on how to obtain these credits\, read this document. Please contact your own department at your host University to confirm.See here the full schedule for this semester. \n\n\n\nThis week:\n\n\n\n\n\n\nGreta Gudoityte\n\n\n\nBrinton Seashore-Ludlow – alpha 4 \n\n\n\nLeveraging Patient-Derived Models to Identify Novel Treatment Options in High-Grade Serous Ovarian Cancer \n\n\n\n\n\nPablo Carravilla\n\n\n\nErdinc Sezgin – gamma 3 \n\n\n\nMembrane biophysics in lysosomal rare diseases \n\n\n\n\n\n\nThis seminar series is organized by the PhD & Postdoc Council. For more information about the Council and other events check our page.
URL:https://www.scilifelab.se/event/campus-solna-seminar-series-mariya-mardamshina-pablo-carravilla/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Community
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2022/09/IMG_20221103_123412496_HDR2-scaled.jpg
ORGANIZER;CN="SciLifeLab Solna PhD & Postdoc Council":MAILTO:phd-council@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241124T090000
DTEND;TZID=Europe/Stockholm:20241129T170000
DTSTAMP:20260404T010044
CREATED:20240703T145519Z
LAST-MODIFIED:20240703T145521Z
UID:10001292-1732438800-1732899600@www.scilifelab.se
SUMMARY:Introduction to bioinformatics using NGS data
DESCRIPTION:National workshop for PhD students\, postdocs\, researchers\, and other employees within Swedish academia\, introducing the analysis of next generation sequencing data. \n\n\n\nThe course is organized by: National Bioinformatics Infrastructure Sweden (NBIS) and National Genomics Infrastructure (NGI) \n\n\n\nResponsible teachers: Malin Larsson\, Martin Dahlö\, Roy Francis \n\n\n\nContact information: edu.intro-ngs@nbis.se  \n\n\n\n\n\n\n\nImportant dates\n\n\n\nApplication opens: July 4\, 2024 \n\n\n\nApplication closes: Oct 13\, 2024 \n\n\n\nConfirmation to accepted participants: 1 week after application deadline \n\n\n\n\n\n\n\n\n\nApplication\n\n\n\n\n\nCourse website\n\n\n\n\n\n\n\n\n\n\n\n\n\nCourse fee\n\n\n\nThis on-site training event costs 3000 SEK for academic participants and 15 000 SEK for non-academic participants\, invoiced to the participant’s organisation. If you accept a position and do not participate (no-show) you will still be invoiced at the standard fee. Please note that NBIS cannot invoice individuals.  \n\n\n\n\n\n\n\nCourse description\n\n\n\nThis intense one-week workshop provides an introduction to the analysis of next generation sequencing data. Lectures on the theory of concepts will be paired with practical computational exercises in the Linux environment. The practical exercises will focus on data from the Illumina platform\, but we will discuss other sequencing platforms and the advantages and challenges to using their data during the lectures.  \n\n\n\n\n\n\n\nCourse content\n\n\n\nBriefly\, the workshop covers the followings major topics: \n\n\n\n\nWorking on the UNIX/LINUX command line\n\n\n\nBioinformatic/NGS data formats and QC\n\n\n\nDNA variant calling workflow essentials\n\n\n\nRNA sequence analysis workflow essentials\n\n\n\n\n\n\n\n\nLearning outcomes\n\n\n\nAfter this workshop you should be able to: \n\n\n\n\nDescribe the basic principles of next generation sequencing.\n\n\n\nUse the Linux command line interface to manage simple file processing operations\, and organise directory structures.\n\n\n\nConnect to and work on a remote high performance compute cluster.\n\n\n\nApply programs in Linux for analysis of NGS data.\n\n\n\nSummarise the applications of current NGS technologies\, including the weakness and strengths of the approaches and when it is appropriate to use which one of them.\n\n\n\nExplain common NGS file formats.\n\n\n\nInterpret quality control of NGS reads.\n\n\n\nExplain the steps involved in variant calling using whole genome sequencing data.\n\n\n\nIndependently perform a basic variant calling workflow on example data.\n\n\n\nDemonstrate hands-on experience with handling raw RNA sequencing data\, QC and quantification of gene expression.\n\n\n\nExplain the steps involved in differential gene expression using RNA seq data.\n\n\n\n\n\n\nEntry requirements\n\n\n\nTo be able to follow the workshop you need to: \n\n\n\nBYOL\, bring your own laptop configured according to precourse instructions. \n\n\n\nHave a background in genetics\, cell biology\, biomedicine\, biochemistry\, bioinformatics or comparable. \n\n\n\nTo get the maximum benefit from the workshop you should: \n\n\n\nHave a research project where you are currently using or are planning to use next generation sequencing.  \n\n\n\n\n\n\n\nSelection criteria\n\n\n\nDue to limited space the course can accommodate a maximum of 30 participants. If we receive more applications\, participants will be selected based on several criteria. Selection criteria include correct entry requirements\, motivation to attend the workshop as well as gender and geographical balance. Priority is given to PhD scholars followed by other researchers\, and we will prioritise applications  from Swedish academia.
URL:https://www.scilifelab.se/event/introduction-to-bioinformatics-using-ngs-data-4/
LOCATION:Linköping\, Sweden
CATEGORIES:Course
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241125T080000
DTEND;TZID=Europe/Stockholm:20241129T170000
DTSTAMP:20260404T010044
CREATED:20240823T090255Z
LAST-MODIFIED:20240823T090341Z
UID:10001335-1732521600-1732899600@www.scilifelab.se
SUMMARY:NBIS/ELIXIR-SE Tools for Reproducible Research
DESCRIPTION:NBIS / ELIXIR-SE course open for PhD students\, postdocs\, group leaders and core facility staff at all Swedish universities interested in making their computational analysis more reproducible. \n\n\n\nImportant dates and information\n\n\n\nApplication opens: 2024-08-26 \n\n\n\nApplication closes: 2024-10-18 \n\n\n\nConfirmation to accepted students: 2024-10-25 \n\n\n\nCourse Leader and teachers: \n\n\n\n\nJohn Sundh (CL)\n\n\n\nErik Fasterius (CL)\n\n\n\nEstelle Proux-Wéra\n\n\n\nLokeshwaran Manoharan\n\n\n\nTomas Larsson\n\n\n\nCormac Kinsella\n\n\n\nMahesh Binzer-Panchal\n\n\n\n\nIn case you miss information on any of the above dates\, please contact:  edu.trr@nbis.se \n\n\n\nApply here\n\n\n\nContact information: edu.trr@nbis.se \n\n\n\nCourse fee\n\n\n\nA course fee* of 3000 SEK will be invoiced to accepted participants. The fee includes lunches\, coffee/tea and snacks as well as a course dinner. \n\n\n\n*Please note that NBIS cannot invoice individuals \n\n\n\nCourse content\n\n\n\nThis course will introduce best practices in making research reproducible – from code tracking to software packaging and documentation – via short lectures and hands-on tutorials. \n\n\n\nTopics covered will include: \n\n\n\n\nGood practices for data analysis\n\n\n\nVersion control and collaborative code development\n\n\n\nPackage and environment management\n\n\n\nWorkflow management\n\n\n\nDocumentation and reporting\n\n\n\nContainerized computational environments\n\n\n\n\nLearning Outcomes \n\n\n\nUpon completion of this course\, you will be able to: \n\n\n\n\nOrganize and structure computational projects\n\n\n\nTrack changes and collaborate on code using Git\n\n\n\nInstall packages and manage software environments using Conda\n\n\n\nStructure computational steps into workflows with Snakemake and Nextflow\n\n\n\nCreate automated reports and document their analyses with Quarto and Jupyter\n\n\n\nPackage and distribute computational environments using Docker and Singularity\n\n\n\n\nEntry requirements\n\n\n\nThe following is a list of skills required for being able to follow the course and complete the exercises: \n\n\n\n\nFamiliarity with using the terminal (e.g. be familiar with commands such as ls\, cd\, touch\, mkdir\, pwd\, wget\, man\, etc.)\n\n\n\nSome knowledge in R and/or python is beneficial but not strictly required\n\n\n\n\nDue to limited space the course can accommodate a maximum of 20 participants. If we receive more applications\, participants will be selected based on selection criteria\, including (but not limited to) correct entry requirements\, motivation to attend the course\, as well as gender and geographical balance.
URL:https://www.scilifelab.se/event/nbis-elixir-se-tools-for-reproducible-research-3/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Course
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241125T090000
DTEND;TZID=Europe/Stockholm:20241129T170000
DTSTAMP:20260404T010044
CREATED:20240918T091340Z
LAST-MODIFIED:20240918T091341Z
UID:10001358-1732525200-1732899600@www.scilifelab.se
SUMMARY:Biostatistics and Machine Learning II
DESCRIPTION:National course for PhD students\, researchers\, and other employees across Swedish universities who seek to deepen their biostatistical and machine learning skills.  Building on the Introduction to Biostatistics and Machine Learning course\, this course expands on common life science data analysis methods\, including dimensionality reduction techniques beyond PCA\, mixed-effects models for analysis of repeated measures\, and survival analysis. We will also dive deeper into machine learning\, covering more classification algorithms\, ensemble techniques\, optimization strategies and PLS methods for single and multi-omics data analysis. \n\n\n\n\n\n\n\nImportant dates\n\n\n\nApplication open: now \n\n\n\nApplication closes: 2024-10-18 \n\n\n\nConfirmation to accepted students:  2024-10-25 \n\n\n\nResponsible teachers:  Payam Emami\, Olga Dethlefsen\, Eva Freyhult \n\n\n\nIf you do not receive information according to the above dates please contact edu.ml-biostats@nbis.se \n\n\n\n\n\n\n\n\n\nApplication\n\n\n\n\n\nCourse website\n\n\n\n\n\n\n\n\n\nCourse fee\n\n\n\nA course fee of 3000 SEK for academic participants and 15 000 SEK for non-academic participants will be invoiced to accepted participants. The fee includes lunches\, coffee and snacks. \n\n\n\n*Please note that NBIS cannot invoice individuals \n\n\n\n\n\n\n\nCourse content\n\n\n\n\nDimensionality reduction techniques beyond PCA\n\n\n\nClassification algorithm and ensemble techniques\n\n\n\nMachine learning optimization strategies\n\n\n\nPLS-based methods for single and multi-omics data analysis\n\n\n\nMixed-effects models for repeated measures\, longitudinal studies and nested designs\n\n\n\nSurvival analysis\n\n\n\nIntroduction to neural networks\n\n\n\n\n\n\n\n\nEducation\n\n\n\nIn this course\, we focus on an active learning approach. The education consists of teaching blocks alternating between lectures\, group discussions\, live coding sessions etc. \n\n\n\n\n\n\n\nEntry requirements\n\n\n\n\nBasic R and Python data science skills (for more details see course website)\n\n\n\nHaving attended the Introduction to Biostatistics and Machine Learning course or having equivalent knowledge\n\n\n\nBYOL (bring your own laptop)\n\n\n\n\nThe course can accommodate a maximum of 24 participants. If we receive more applications\, participants will be selected based on several criteria. Selection criteria include correct entry requirements\, motivation to attend the course as well as gender and geographical balance.
URL:https://www.scilifelab.se/event/biostatistics-and-machine-learning-ii/
LOCATION:Navet\, SciLifeLab Uppsala\, SciLifeLab Uppsala\, BMC C11\, Husargatan 3\, Uppsala\, 75237\, Sweden
CATEGORIES:Course
ORGANIZER;CN="NBIS & Training Hub":MAILTO:traininghub@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241128T120000
DTEND;TZID=Europe/Stockholm:20241128T130000
DTSTAMP:20260404T010044
CREATED:20240708T145300Z
LAST-MODIFIED:20241115T084806Z
UID:10001305-1732795200-1732798800@www.scilifelab.se
SUMMARY:Campus Solna Seminar Series: Linnéa Lindquist & Olivia Andén
DESCRIPTION:Welcome to join the Campus Solna Seminar Series – an initiative to promote the fantastic science ongoing at Campus Solna and hopefully forge more internal communication and collaboration between within Campus Solna. The format consists of two 20 min talks (One speaker from the Alpha-building and one from the Gamma-building respectively)\, with an additional 5 min of questions. Presentation of ongoing (unpublished) projects is strongly encouraged. \n\n\n\nThe seminars are held Thursdays 12:00-13:00. You can bring your lunch to the seminar. \n\n\n\nPhD students that are attending the Campus Solna Seminar lectures will have the opportunity to gain credits. For the syllabus and instructions on how to obtain these credits\, read this document. Please contact your own department at your host University to confirm.See here the full schedule for this semester. \n\n\n\nThis week:\n\n\n\n\n\n\nLinnéa Lindquist\n\n\n\nCecilia Williams – alpha 2 \n\n\n\nSingle-cell RNA sequencing of mouse knockout ovary to reveal fertility mechanisms \n\n\n\n\n\nOlivia Andén\n\n\n\nErik Lindahl – gamma 3 \n\n\n\nStructural characterization of regulation by a dynamic N-terminal module in a pentameric ligand-gated ion channel \n\n\n\n\n\n\nThis seminar series is organized by the PhD & Postdoc Council. For more information about the Council and other events check our page.
URL:https://www.scilifelab.se/event/campus-solna-seminar-series-linnea-lindquist-olivia-anden/
LOCATION:Milkyway SciLifeLab Solna\, Tomtebodavägen 23\, Solna
CATEGORIES:Community
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2022/12/IMG_4110-scaled.jpg
ORGANIZER;CN="SciLifeLab Solna PhD & Postdoc Council":MAILTO:phd-council@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241128T130000
DTEND;TZID=Europe/Stockholm:20241128T150000
DTSTAMP:20260404T010044
CREATED:20241105T091253Z
LAST-MODIFIED:20241105T101354Z
UID:10001396-1732798800-1732806000@www.scilifelab.se
SUMMARY:SciLifeLab Linköping Seminar Series 2024: NAISS and NSC
DESCRIPTION:Here we present NAISS and NSC: Life science research is producing and handling large amounts of data. Learn how you can use the supercomputers in your research. \n\n\n\nProgram \n\n\n\n13:00 NAISS and NSC\, Björn Alling \n\n\n\n13:20 Our resources incl. Berzelius – NSC’s AI/ML system used within SciLifeLab\, Niclas Andersson and Johan Raber \n\n\n\n13:45 Coffee \n\n\n\n14:15 Facility tour in the computer halls incl. display of Berzelius (on site) \n\n\n\nOnline at Zoom 13:00 – 13:45
URL:https://www.scilifelab.se/event/scilifelab-linkoping-seminar-series-2024-naiss-and-nsc/
LOCATION:Linköping University\, Campus Valla\, Hans Meijers väg 12\, 583 29\, Linköping
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2024/11/NSC-bandrobot-lagring_DSC2160.jpg
ORGANIZER;CN="Research infrastructures in Life Science Seminar Series (SciLifeLab Link%C3%B6ping)":MAILTO:linkoping@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241128T153000
DTEND;TZID=Europe/Stockholm:20241128T180000
DTSTAMP:20260404T010044
CREATED:20241030T142714Z
LAST-MODIFIED:20241030T142906Z
UID:10001391-1732807800-1732816800@www.scilifelab.se
SUMMARY:Healthcare and Life Sciences Ecosystem Event
DESCRIPTION:SciLifeLab\, together with NVIDIA\, Accenture and Stuns organize this event and welcome you to join us on November 28 for a groundbreaking Healthcare and Life Sciences ecosystem event. Discover how new computing paradigms are revolutionizing personalized medicine\, next-generation clinics\, and biomedical research. \n\n\n\nConnect with fellow innovators\, startups\, researchers\, practitioners\, and integrators as we navigate the rapidly evolving healthcare landscape together. Don’t miss this opportunity to be part of a community shaping the future of healthcare. \n\n\n\n \n\n\n\n \n\n\n\nRead more\n\n\n\n \n\n\n\nAgenda\n\n\n\n3:30 pm – Arrival and Registration \n\n\n\n4:00 pm – Welcome Address \n\n\n\n4:30 pm – Medical Imaging Showcase \n\n\n\n4:45 pm – Life Science Showcase \n\n\n\n5:00 pm – Converging Frontiers: Shaping the Swedish AI Ecosystem (Consulting\, Pharma\, Startup) \n\n\n\n6:00 pm – Reception with Networking and Demos
URL:https://www.scilifelab.se/event/healthcare-and-life-sciences-ecosystem-event/
LOCATION:Urban Deli Hagastaden\, Hagaesplanaden 49\, Stockholm\, Stockholm\, Sweden
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241129T110000
DTEND;TZID=Europe/Stockholm:20241129T120000
DTSTAMP:20260404T010044
CREATED:20241114T123841Z
LAST-MODIFIED:20241114T125759Z
UID:10001402-1732878000-1732881600@www.scilifelab.se
SUMMARY:Understanding response to immune checkpoint blockade in melanoma by spatially resolved single-cell analyses
DESCRIPTION:Clinical Genomics Webinar Series\n\n\n\nThe Clinical Genomics Seminar Series offers an engaging platform for researchers and  clinicians to explore the latest advancements and applications of genomics in healthcare. Each session features presentations on cutting-edge research\, innovative technologies\, and real-world case studies that highlight how genomics is transforming diagnostics\, treatment\, and personalized medicine. \n\n\n\nWebinar November 29\n\n\n\nThis talk will focus on the application of spatial transcriptomics and in situ sequencing in understanding the response of melanoma to immune checkpoint blockade therapy. These advanced techniques allow researchers to map gene expression and cellular interactions within the tumor microenvironment with high spatial resolution. By doing so\, Professor Göran Jönsson and his team at Lund University\, aim to uncover how different cells\, including immune cells\, behave and respond to therapies\, helping to identify biomarkers and mechanisms of resistance. This research is instrumental in improving personalized treatment approaches and enhancing the efficacy of immunotherapies in melanoma patients. \n\n\n\nPresenter: Professor Göran Jönsson\, Lund University Cancer Center (LUCC)\, Division of Oncology\, Lund University \n\n\n\nHost/moderator: Markus Heidenblad\, Head of Unit\, Clinical Genomics Lund \n\n\n\n\nZoom link
URL:https://www.scilifelab.se/event/understanding-response-to-immune-checkpoint-blockade-in-melanoma-by-spatially-resolved-single-cell-analyses/
LOCATION:Online event via Zoom
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2024/11/CG-webinar-series_crop.png
ORGANIZER;CN="Clinical Genomics Platform":MAILTO:marcela.davila@gu.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241202T090000
DTEND;TZID=Europe/Stockholm:20241206T170000
DTSTAMP:20260404T010044
CREATED:20240913T103340Z
LAST-MODIFIED:20241129T105934Z
UID:10001354-1733130000-1733504400@www.scilifelab.se
SUMMARY:Population genomics in practice - Cancelled
DESCRIPTION:Note – this course has been cancelled. National course open for PhD students\, postdocs\, researchers and other employees in all Swedish universities\, in need of  hands-on and practical skills for the analyses of population genomics data. We also welcome applications from outside of Sweden and from the non-academic sector\, for more info contact us! \n\n\n\n\n\n\n\nImportant dates and information\n\n\n\nApplication opens: 2024-09-09 \n\n\n\nApplication closes: 2024-10-15 \n\n\n\nConfirmation to accepted students: 2024-10-30 \n\n\n\nCourse Leader and teachers: Per Unneberg (CL)\, André Soares (CL)\, Nikolay Oskolkov\, Jason Hill \n\n\n\nIn case you miss information on any of the above dates\, please contact: edu.population-genomics-in-practice@nbis.se \n\n\n\n\n\n\n\n\n\nApplication\n\n\n\n\n\nCourse website\n\n\n\n\n\n\n\n\n\nCourse fee\n\n\n\nA course fee* of 3000 SEK  for academic participants and 15000 SEK for non-academic participants will be invoiced to accepted participants. The fee includes lunches\, coffee and snacks. \n\n\n\n*Please note that NBIS cannot invoice individuals \n\n\n\n\n\n\n\nCourse content\n\n\n\nThe aim of this workshop is to provide an introduction to commonly used methods in population genomics. As the focus of the course is on hands-on work\, the topics have been designed to cover the fundamental analyses that are common in many population genomics studies. The course consists of lectures and exercises\, with a focus on the practical aspects of analyses. Whereas lectures introduce some background theory\, their primary aim is to set the stage for accompanying exercises. \n\n\n\nTopics covered will include: \n\n\n\n\nFoundations of population genetics\n\n\n\nIntroduction to simulation and the coalescent\n\n\n\nBasics of variant calling\n\n\n\nVariant filtering and sequence masks\n\n\n\nCharacterization and interpretation of DNA sequence variation\n\n\n\nCalculation and interpretation of summary statistics from variation data\n\n\n\nInvestigating population structure with admixture modelling and principal component analyses\n\n\n\nDemographic modelling using sequentially Markovian coalescent models and linkage disequilibrium\n\n\n\nSelection scans\n\n\n\n\n\n\n\n\n\n\nLearning Outcomes\n\n\n\nUpon completion of this course\, you will be able to: \n\n\n\n\ndescribe the different forces of evolution and how they influence genetic variation\n\n\n\nunderstand and interpret genealogical trees and how they relate to genetic variation data\n\n\n\ndescribe the basics of the coalescent\n\n\n\nperform simple coalescent simulations with msprime\n\n\n\nrun simple SLiM forward simulation models\n\n\n\ndescribe and run the steps of a variant calling pipeline\, including quality control of raw reads\, read mapping\, and variant calling\n\n\n\nknow how and when to filter raw variant calls using manual coverage filters\n\n\n\ndescribe and calculate nucleotide diversity from variation data\n\n\n\nanalyse population structure with admixture modelling and dimensionality reduction methods\n\n\n\nperform demographic modelling with sequential Markovian coalescent models\n\n\n\ndescribe methods that identify regions undergoing adaptation and selection\n\n\n\nrun selection scans\, score identified regions and interpret findings in the context of genome annotations\n\n\n\n\n\n\n\n\nEntry requirements\n\n\n\nThe following is a list of skills required for being able to follow the course and complete the exercises: \n\n\n\n\nBasic knowledge in R or Python\n\n\n\nBasic knowledge of variant calling\, or the equivalent of NBIS course “Introduction to Bioinformatics using NGS data”\n\n\n\nBasic knowledge of population genetics\n\n\n\nBasic understanding of frequentist statistics\n\n\n\nA computer\n\n\n\n\nDesirable\, but not essential\, skills increasing the output of the course\, include: \n\n\n\n\nExperience with analysis of NGS and other omic data\n\n\n\n\n\n\n\n\nDue to limited space the course can accommodate a maximum of 25 participants. If we receive more applications\, participants will be selected based on selection criteria\, including (but not limited to) correct entry requirements\, motivation to attend the course\, as well as gender and geographical balance.
URL:https://www.scilifelab.se/event/population-genomics-in-practice-2/
LOCATION:Navet\, SciLifeLab Uppsala\, SciLifeLab Uppsala\, BMC C11\, Husargatan 3\, Uppsala\, 75237\, Sweden
CATEGORIES:Course
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241202T151500
DTEND;TZID=Europe/Stockholm:20241202T161500
DTSTAMP:20260404T010044
CREATED:20241118T142548Z
LAST-MODIFIED:20241120T081943Z
UID:10001404-1733152500-1733156100@www.scilifelab.se
SUMMARY:[The Svedberg seminar] - Diversity of left-right asymmetry among animals
DESCRIPTION:Hiroshi HamadaProfessorNational Center for Biological Sciences\, Ashoka University\, India \n\n\n\n \n\n\n\n \n\n\n\n\n\n\n\nBio\n\n\n\nProfessor Hiroshi Hamada is a visiting professor at National Center for Biological Sciences in Ashoka University\, India. Professor Hamada received his M.D from Okayama University in 1975 and his PhD from the same university in 1979. Since then he has worked at several prestigious institutions such as NIH and RIKEN. He has been an associate editor and part of the editorial board on a number of journals within the medical field. \n\n\n\nDiversity of left-right asymmetry among animals\n\n\n\nMost of animals exhibit left-right (L-R) asymmetries in internal and/or superficial organs\, but they employ different mechanisms for L-R asymmetry\, especially for symmetry breaking. Many vertebrates including fish\, amphibians and mammals\, use motile cilia to generate unidirectional fluid flow at the left-right organizer\, for symmetry breaking. Birds and reptiles\, however\, break L-R symmetry without motile cilia\, but its mechanism remains unknown. Invertebrates such as insects and snails employ a variety of different mechanisms. We studied the genetic pathway that establishes L-R asymmetry in the mouse\, but we are now investigating how chick embryos establish molecular L-R asymmetry without cilia. Also\, we have started to investigate how snail embryos establish L-R asymmetric gene expression. I would like to introduce our current attempts with chick and snail embryos. \n\n\n\n \n\n\n\n \n\n\n\n \n\n\n\n\n\n\n\nHost: Gonzalo Sanchez\, UU gonzalo.sanchez@mcb.uu.se
URL:https://www.scilifelab.se/event/the-svedberg-seminar-diversity-of-left-right-asymmetry-among-animals/
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
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241203T150000
DTEND;TZID=Europe/Stockholm:20241203T153000
DTSTAMP:20260404T010044
CREATED:20241126T090741Z
LAST-MODIFIED:20241126T090742Z
UID:10001409-1733238000-1733239800@www.scilifelab.se
SUMMARY:Psychological Safety at Work
DESCRIPTION:Psychological safety is essential for every thriving workplace\, enhancing job satisfaction and performance. In this seminar\, we will explore what psychological safety is\, how it boosts team and individual success\, and the stages involved – from fostering inclusion to encouraging constructive feedback and critical thinking. Insights from key research will highlight practical ways to build a culture of trust and growth. \n\n\n\nZoom link
URL:https://www.scilifelab.se/event/psychological-safety-at-work/
LOCATION:Hybrid event in Gamma 2 lunchroom and zoom\, Tomtebodavägen 23 B\, Solna\, 17165\, Sweden
CATEGORIES:Community
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2024/09/CSI_logo_square.png
ORGANIZER;CN="Coaching in Science Initiative (CSI)":MAILTO:sami.saarenpaa@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241204T143000
DTEND;TZID=Europe/Stockholm:20241204T150000
DTSTAMP:20260404T010044
CREATED:20241122T101542Z
LAST-MODIFIED:20241203T150445Z
UID:10001408-1733322600-1733324400@www.scilifelab.se
SUMMARY:Pfizer Discovery Network introduction
DESCRIPTION:Listen in and learn more about how Pfizer discovery network operate and get info about upcoming possibilities. \n\n\n\nThis is an event organised by SciLifeLab external relations in collaboration with Pfizer discovery network. The introduction is followed by individual pitch-sessions offered to SciLifeLab researchers earlier in the fall (via an open call\, now closed). You are most welcome to listen in even if you are not pitching afterwards. \n\n\n\nAlso\, don’t miss out on an up-coming call where Pfizer is seeking proposals to support early drug discovery efforts in: Novel technologies for cellular phenotyping at scale and Models and biomarkers for neuroinflammation. \n\n\n\nProgram: 1. Marois Dimitriou (Pfizer): Discovery Network Introduction. 2. Katrina Loomis (Pfizer): Call for proposals according to below.3. Time for questions from the audience.
URL:https://www.scilifelab.se/event/pfizer-discovery-network-introduction/
LOCATION:Online event via Zoom
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241205T120000
DTEND;TZID=Europe/Stockholm:20241205T130000
DTSTAMP:20260404T010044
CREATED:20240708T145424Z
LAST-MODIFIED:20241203T090651Z
UID:10001306-1733400000-1733403600@www.scilifelab.se
SUMMARY:Campus Solna Seminar Series: Varun Kumar Rajendran & Marta Bonaccorsi
DESCRIPTION:Welcome to join the Campus Solna Seminar Series – an initiative to promote the fantastic science ongoing at Campus Solna and hopefully forge more internal communication and collaboration between within Campus Solna. The format consists of two 20 min talks (One speaker from the Alpha-building and one from the Gamma-building respectively)\, with an additional 5 min of questions. Presentation of ongoing (unpublished) projects is strongly encouraged. \n\n\n\nThe seminars are held Thursdays 12:00-13:00. You can bring your lunch to the seminar. \n\n\n\nPhD students that are attending the Campus Solna Seminar lectures will have the opportunity to gain credits. For the syllabus and instructions on how to obtain these credits\, read this document. Please contact your own department at your host University to confirm.See here the full schedule for this semester. \n\n\n\nThis week:\n\n\n\n\n\n\nVarun Kumar Rajendran\n\n\n\nMartin Viklund – gamma 3 \n\n\n\nAcoustofluidic sample delivery systems for X-ray crystallography \n\n\n\n\n\nMarta Bonaccorsi\n\n\n\nLucie Delemotte – gamma 3 \n\n\n\nInvestigating the conformational landscape of sugar transporters \n\n\n\n\n\n\nThis seminar series is organized by the PhD & Postdoc Council. For more information about the Council and other events check our page.
URL:https://www.scilifelab.se/event/campus-solna-seminar-series-greta-gudoityte-marta-bonaccorsi/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Community
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2022/09/IMG_20221103_124630107_HDR-scaled.jpg
ORGANIZER;CN="SciLifeLab Solna PhD & Postdoc Council":MAILTO:phd-council@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241210T090000
DTEND;TZID=Europe/Stockholm:20241210T161500
DTSTAMP:20260404T010044
CREATED:20241029T154840Z
LAST-MODIFIED:20241206T135109Z
UID:10001389-1733821200-1733847300@www.scilifelab.se
SUMMARY:4th users meeting - Integrated Structural Biology SciLifeLab
DESCRIPTION:Welcome to the 4th annual users meeting within Integrated Structural Biology in Sweden! \n\n\n\nWe hope to hear from the community and encourage you to send in a short abstract from which we will select users/students/postdocs to give a 15 min presentation. Please upload your abstract (maximum 600 characters in the registration form) if you would like to be considered for an oral presentation. \n\n\n\nregistration\n\n\n\nThose of you who are selected for a presentation will have their travel expenses covered as well as one hotel night (Dec 9) if travelling from outside Stockholm/Uppsala. \n\n\n\nFor any questions\, don’t hesitate to contact Cecilia Persson (cecilia.persson@nmr.gu.se) \n\n\n\nProgram\n\n\n\n4th users meeting – Integrated Structural Biology SciLifeLabDownload
URL:https://www.scilifelab.se/event/4th-users-meeting-integrated-structural-biology-scilifelab/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Event
ORGANIZER;CN="Integrated Structural Biology Platform at SciLifeLab":MAILTO:cecilia.persson@nmr.gu.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241211T083000
DTEND;TZID=Europe/Stockholm:20241211T153000
DTSTAMP:20260404T010044
CREATED:20241024T060207Z
LAST-MODIFIED:20241121T102250Z
UID:10001386-1733905800-1733931000@www.scilifelab.se
SUMMARY:SciLifeLab & AAAS/Science Publishing Workshop for Junior Researchers 2024
DESCRIPTION:Applications are now welcome for participation in this highly regarded and rewarding interactive workshop by Science and SciLifeLab. Designed for early career researchers (PhD students and postdocs) in SciLifeLab:s research community\, the workshop focuses on the publishing landscape\, paper preparation\, and the publication process. \n\n\n\n\n\n\n\nWorkshop leaders: \n\n\n\n\nValda Vinson (Executive Editor\, Science Magazine)\n\n\n\nSacha Vignieri (Deputy Editor Research\, Science Magazine)\n\n\n\n\nThe workshop is split into a hybrid morning session\, and an afternoon on-site workshop (see Curriculum for details). Questions from the participants will be addressed by the Editors in generous Q&A sessions.  \n\n\n\nOn-site participation\, including lunch and coffee breaks with the Editors\, is limited to 40 participants. Participants for the on-site workshop will be selected after the application deadline\, with consideration for gender balance\, affilitation (with aim to distribute workshop spots nationally and across all universities)\, and in case of equivalent applications\, date of application (first come\, first serve basis). \n\n\n\nDeadline for application: November 27 \n\n\n\nApply here
URL:https://www.scilifelab.se/event/scilifelab-aaas-science-publishing-workshop-for-junior-researchers-2024/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Event
ORGANIZER;CN="SciLifeLab Event":MAILTO:events@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241211T130000
DTEND;TZID=Europe/Stockholm:20241211T160000
DTSTAMP:20260404T010044
CREATED:20241105T131701Z
LAST-MODIFIED:20241105T132546Z
UID:10001397-1733922000-1733932800@www.scilifelab.se
SUMMARY:SciLifeLab Linköping Seminar Series 2024: NBIS
DESCRIPTION:SciLifeLab Linköping invites to a seminar series with focus on our local life-science infrastructure units. \n\n\n\nHere we present the National Bioinformatics Infrastructure Sweden (NBIS)
URL:https://www.scilifelab.se/event/scilifelab-linkoping-seminar-series-2024-nbis/
LOCATION:Wrannesalen\, Campus US\, Linköping\, North entrance\, elevator K\, floor 11\, Linköping
CATEGORIES:Event
ORGANIZER;CN="SciLifeLab Link%C3%B6ping":MAILTO:linkoping@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241211T153000
DTEND;TZID=Europe/Stockholm:20241212T150000
DTSTAMP:20260404T010044
CREATED:20241106T142016Z
LAST-MODIFIED:20241202T124046Z
UID:10001399-1733931000-1734015600@www.scilifelab.se
SUMMARY:SciLifeLab Research Data Management Roadshow in Lund
DESCRIPTION:SciLifeLab Data Centre and NBIS\, in collaboration with SciLifeLab Lund\, welcome you to join a 2-day event with presentations\, workshops\, & networking.  \n\n\n\nSciLifeLab Data Management is a collaborative activity between SciLifeLab Data Centre and NBIS Data Management team. Together we support and collaborate with the Swedish life sciences research community and infrastructure. Our aims are to: maximize the value of life science data\, highlight and disseminate information about Open Science\, FAIR\, and good RDM practices\, offer services\, tools\, and support\, and offer courses and training. SciLifeLab Research Data Management Roadshow will visit all SciLifeLab sites during 2024 and 2025. \n\n\n\nDuring the Roadshow in Lund\, the following activities are offered: \n\n\n\n\nSeminar “Overview of Research Data Management services and support available locally and from SciLifeLab”\, 11 Dec 15:30-16:30 (fika will be served from 15)\,  Belfragesalen\, BMC D15Target group: PhD students\, postdocs\, researchers and infrastructure staff\n\n\n\nFAIR Frukost\, 12 Dec\, 9:00-10:00\, (BMC:E11079 Dialogen)Target group: PhD students and postdocs\n\n\n\nWorkshops\, 12 Dec\,Part I: Data Management Plans\, 10:00-12:00 (BMC:E11079 Dialogen)Part II: Data submission to public repositories\, 13:00-15:00 (BMC:E11073 Rådslaget)\n\n\n\n\nTarget group: PhD students\, postdocs\, researchers and infrastructure staff \n\n\n\nRegistration deadline: December 9th \n\n\n\nRegister Here
URL:https://www.scilifelab.se/event/scilifelab-research-data-management-roadshow-in-lund/
LOCATION:BMC – Biomedical Centre (Lund)\, Sölvegatan 19\, Lund\, 22362\, Sweden
CATEGORIES:Event
ORGANIZER;CN="SciLifeLab Data Centre":MAILTO:datacentre@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241212T090000
DTEND;TZID=Europe/Stockholm:20241212T130000
DTSTAMP:20260404T010044
CREATED:20241021T090522Z
LAST-MODIFIED:20241202T132758Z
UID:10001376-1733994000-1734008400@www.scilifelab.se
SUMMARY:Science & SciLifeLab Prize Scientific Symposium 2024
DESCRIPTION:Science\, the American Association for the Advancement of Science (AAAS)\, and SciLifeLab joined forces in 2013\, creating the Science & SciLifeLab Prize for Young Scientists to recognize excellence amongst young researchers from around the world. A global Prize aimed at rewarding scientists at an early stage of their careers. \n\n\n\nThe Prize is awarded in four different categories and the four winners are; \n\n\n\n\nAndrija Sente\, Grand Prize Winner in Cell and Molecular Biology\n\n\n\nJarrod Shilts\, Category Winner in Genomics\, Proteomics\, and Systems Biology Approaches\n\n\n\nSabrina Rondeau\, Category Winner in Ecology and Environment\n\n\n\nGabriele Casirati\, Category Winner in Molecular Medicine\n\n\n\n\nRead more about each winner by clicking their names \n\n\n\nAll four winners of the Science & SciLifeLab Prize for Young Scientists are invited to Sweden December 8-13 to participate in a unique week filled with events in honor of science. They will have the opportunity to meet with leading scientists in their field of research and create life-long connections to support their careers. \n\n\n\nWelcome to the Scientific Symposium where the winners of the 2024 Science & SciLifeLab Prize for Young Scientists will present their research. \n\n\n\nThe symposium will take place at beautiful Hasselbacken at Djurgården in Stockholm. \n\n\n\nSeats are limited so register today for your chance to meet with the winners and the the AAAS/Science editor team AND our honorary guest\, the Grand Prize Winner from 2016\, Dr. Neir Eshel.  \n\n\n\n \n\n\n\n \n\n\n\nThis year’s keynote speaker is  2016 year’s Grand Prize winner Neir Eshel  \n\n\n\nPrize_speaker biographies_2024Download\n\n\n\nRegistration\n\n\n\nProgram\n\n\n\nRead more About the prize here
URL:https://www.scilifelab.se/event/science-scilifelab-prize-scientific-symposium-2024/
LOCATION:Hasselbacken\, Hazeliusbacken 20\, Stockholm\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2020/11/winner-photos-2020_270x170_prizepicture_black-scaled.jpg
ORGANIZER;CN="Science/AAAS and SciLifeLab":MAILTO:events@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241212T120000
DTEND;TZID=Europe/Stockholm:20241212T130000
DTSTAMP:20260404T010044
CREATED:20240708T145600Z
LAST-MODIFIED:20241209T091859Z
UID:10001307-1734004800-1734008400@www.scilifelab.se
SUMMARY:Campus Solna Seminar Series: Jessika Jessika & Axel Knave
DESCRIPTION:Welcome to join the Campus Solna Seminar Series – an initiative to promote the fantastic science ongoing at Campus Solna and hopefully forge more internal communication and collaboration between within Campus Solna. The format consists of two 20 min talks (One speaker from the Alpha-building and one from the Gamma-building respectively)\, with an additional 5 min of questions. Presentation of ongoing (unpublished) projects is strongly encouraged. \n\n\n\nThe seminars are held Thursdays 12:00-13:00. You can bring your lunch to the seminar. \n\n\n\nPhD students that are attending the Campus Solna Seminar lectures will have the opportunity to gain credits. For the syllabus and instructions on how to obtain these credits\, read this document. Please contact your own department at your host University to confirm.See here the full schedule for this semester. \n\n\n\nThis week:\n\n\n\n\n\n\nJessika Jessika\n\n\n\nAnna Herland – alpha 4 \n\n\n\nInnovative Microdevices for Diabetes Therapeutics: Across In Vitro and In Vivo Medical Technology \n\n\n\n\n\nAxel Knave\n\n\n\nPaul Hudson – gamma 5 \n\n\n\nExploring fitness landscape of a Form II RubisCO in Synechocystis sp PCC 6803 \n\n\n\n\n\n\nThis seminar series is organized by the PhD & Postdoc Council. For more information about the Council and other events check our page.
URL:https://www.scilifelab.se/event/campus-solna-seminar-series-jessika-jessika-axel-knave/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Community
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2022/09/IMG_20221103_120135408_HDR-scaled.jpg
ORGANIZER;CN="SciLifeLab Solna PhD & Postdoc Council":MAILTO:phd-council@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241212T121500
DTEND;TZID=Europe/Stockholm:20241212T130000
DTSTAMP:20260404T010044
CREATED:20241203T152516Z
LAST-MODIFIED:20241203T152518Z
UID:10001413-1734005700-1734008400@www.scilifelab.se
SUMMARY:Bred sekvensering för solida tumörer (GMS560): Praxis och utblick
DESCRIPTION:I takt med att den biologiska förståelsen av solida tumörer har ökat så har arsenalen av behandlingsregimer riktade mot specifika molekylära avvikelser i cancercellerna expanderat.  \n\n\n\nI den precisionsmedicinska eran ställer detta höga krav på våra analysmetoder då vi behöver fånga en stor bredd av molekylära biomarkörer hos den enskilda patienten. Som del av ett nationellt samarbete införs GMS560 på Akademiska sjukhuset.  \n\n\n\nVälkommen till ett lunchseminarium där vi diskuterar hur analysen fungerar i praktiken\, vad vi kan rapportera idag och de biomarkörer som finns på horisonten. \n\n\n\n \n\n\n\nRead more
URL:https://www.scilifelab.se/event/bred-sekvensering-for-solida-tumorer-gms560-praxis-och-utblick/
LOCATION:Enghoffsalen\, Ingång 50 Akademiska sjukhuset\, Uppsala
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241217T151500
DTEND;TZID=Europe/Stockholm:20241217T161500
DTSTAMP:20260404T010044
CREATED:20241121T085553Z
LAST-MODIFIED:20241121T100626Z
UID:10001407-1734448500-1734452100@www.scilifelab.se
SUMMARY:Integrative Modeling of Glycoproteins
DESCRIPTION:Spotlight Seminar series welcomes Dr. Mateusz Sikora\, Head of the Dioscuri Centre for Modelling of Posttranslational Modifications\, Jagiellonian University\, Krakow\, Poland &  Max Planck Institute of Biophysics in Germany  \n\n\n\n\n\n\n\nBiography\n\n\n\nDr. Mateusz Sikora is an expert in biophysics and computational biology. He currently leads the Dioscuri Centre for Modelling of Posttranslational Modifications at Jagiellonian University\, Kraków\, Poland\, co-affiliated at the Max Planck Institute of Biophysics in Frankfurt\, Germany. His research focuses on the role of posttranslational modifications (PTMs) in protein-protein interactions\, using molecular dynamics simulations to study inherently flexible biological systems. \n\n\n\nDr. Sikora obtained his Ph.D. in Biophysics from the Institute of Physics\, Polish Academy of Sciences* in 2012\, graduating summa cum laude\, with Prof Marek Cieplak as a supervisor. His doctoral work on biomolecular dynamics and coarse-grained modeling laid the foundation for his future research into protein flexibility and interaction. He also holds an M.S. in Biophysics from Jagiellonian University. \n\n\n\nHis postdoctoral career includes notable fellowships\, including the FWF Schrödinger Fellowship (2018–2020) at the Max Planck Institute of Biophysics in Frankfurt am Main and University of Vienna\, where he worked with Gerhard Hummer and Christoph Dellago unraveling dynamic behaviour of large protein complexes\, and the EMBO Fellowship (2012–2017) at the Institute of Science and Technology (IST) in Austria with Carl Philipp Heisenberg\, where he applied cell and molecular biology experiments to understand cell-cell contact formation in zebrafish.  \n\n\n\nDr. Sikora’s work is at the intersection of computational biophysics\, structural biology\, and systems biology\, with a particular emphasis on understanding how posttranslational modifications affect the structure and function of proteins. \n\n\n\nHe has authored over 30 peer-reviewed publications (including 1st author Science\, and corresponding author Cell) and made significant contributions to the study of SARS-CoV-2\, including computational models of viral spike proteins and their interactions with host cells\, as well as new methods to study the effects of glycans on proteins. His work has been widely recognized\, with his research featured in prominent media outlets such as Science\, The New York Times\, and National Geographic. \n\n\n\nDr. Sikora has received numerous grants and awards\, including the joint Max Planck and Polish National Science Centre Dioscuri grant. He is also involved in translational research\, with patents related to posttranslational modifications for vaccine development and medical applications. \n\n\n\nWith an h-index of 17 and over 1\,700 citations\, Dr. Sikora is recognized as a leading researcher in his field\, combining advanced computational methods with experimental biology to explore critical biological processes at the molecular level. \n\n\n\nAbstract\n\n\n\nGlycans\, complex sugars covalently attached to proteins\, play crucial roles in protein stability and function\, participate in “self” recognition\, and modulate protein-protein interactions. Unlike proteins\, glycans typically do not form secondary structures and remain highly mobile\, posing challenges for traditional structural biology techniques. This high mobility\, coupled with glycan heterogeneity\, complicates the elucidation of complete glycoprotein structures and hinders research on the role of glycans in protein function. Although computer simulations can help address these challenges\, they often require millions of hours on specialized supercomputers\, highlighting the need for approximate methods that can be integrated into protein-solving pipelines. \n\n\n\nTo overcome these obstacles\, we developed a simplified\, open-source method for rapidly predicting the span and shape of glycans with minimal computing power. Using this approach\, we can accurately predict SARS-CoV-2 spike protein epitopes that are not shielded by glycans\, as well as assess the impact of glycans on protein flexibility. We also demonstrate that this method can be integrated with structural biology methods and glycoproteomics pipelines\, offering a comprehensive tool for glycoprotein analysis. \n\n\n\n\n\n\n\nHost: Piotr Draczkowski piotr.draczkowski@scilifelab.se
URL:https://www.scilifelab.se/event/integrative-modeling-of-glycoproteins/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2023/10/Campus-solna-seminar-picture.jpg
ORGANIZER;CN="Spotlight Seminar Series":MAILTO:events@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241218T110000
DTEND;TZID=Europe/Stockholm:20241218T120000
DTSTAMP:20260404T010044
CREATED:20240919T091627Z
LAST-MODIFIED:20240926T111715Z
UID:10001361-1734519600-1734523200@www.scilifelab.se
SUMMARY:IP Strategies for Academic Startups\, Pharma and Biotech Companies in the Life Sciences
DESCRIPTION:Welcome to this Drug Discovery Webinar\, organized by OligoNova and SciLifeLab Drug Discovery and Development. \n\n\n\nThis seminar will build on the previous sessions on regulatory protection and trade secrets\, aiming to provide real world examples of how these approaches can be used to drive the growth of start-ups. Come with your questions and experiences to share! \n\n\n\nregistration\n\n\n\nAgenda \n\n\n\n\nIntroduction – Fredrik Wångsell\, OligoNova\n\n\n\nIP Strategies in the Life Sciences – Fiona Hey\, Tony Proctor and Michel Pears Potter Clarkson\n\n\n\nBio-tech start-up/company that used trade secrets successfully (to be announced)\n\n\n\nInput from your own experiences\n\n\n\nDiscussion\n\n\n\nQ&A\n\n\n\n\nWelcome \n\n\n\nSciLifeLab DDD and OligoNova \n\n\n\nOther Seminars\n\n\n\nOligaNova organizes three seminars during the fall 2024 \n\n\n\nTrade secrets in the Life Sciences\, October 15 \n\n\n\nMaximizing exclusivity in the Life Sciences\, November 6 \n\n\n\nIP Strategies in the Life Sciences\, December 18
URL:https://www.scilifelab.se/event/ip-strategies-in-the-life-sciences/
LOCATION:Online event via Zoom
CATEGORIES:Event
ORGANIZER;CN="OligoNova - Part of the Drug Discovery and Development Platform":MAILTO:par.matsson@oligonova.org
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241220T110000
DTEND;TZID=Europe/Stockholm:20241220T120000
DTSTAMP:20260404T010044
CREATED:20241203T154235Z
LAST-MODIFIED:20241218T134310Z
UID:10001414-1734692400-1734696000@www.scilifelab.se
SUMMARY:Cancelled: My health\, my data - Privacy-preserving AI in systems medicine
DESCRIPTION:Dec 19:This event is unfortunately cancelled. \n\n\n\n\n\n\n\n \n\n\n\nProf. Jan Baumbach\, Computational Systems Biology\, University of Hamburg \n\n\n\nAbstract \n\n\n\nEuropean Health Data Spaces\, national digital health records archives and similar initiatives aim to provide a mixture of legal and technical frameworks to make privacy-sensitive medical data available for data mining. The ultimate goal is to access the yet behind legal barriers hidden healthcare data treasure in order to train prognostic models for personalized medicine – from disease management to individualized drug repurposing prediction. The biggest road block is the GDPR. In the talk\, we will discuss federated learning technology that – coupled to other privacy-enhancing technologies – allows for a secure multi-center data mining collaboration. Specifically\, we will demonstrate that it does provide as accurate results as centralized solutions. We will discuss concrete applications for multi-centric genome-wide association studies\, for meta-genomics\, transcriptomics and proteomics analysis including batch effect correction\, and for survival time analysis. One applications involved >1\,000 hospitals in North America\, another one involves >100\,000 European screening participants. Finally\, we discuss the limitations and future prospects of federated learning in biomedicine and healthcare data mining.
URL:https://www.scilifelab.se/event/my-health-my-data-privacy-preserving-ai-in-systems-medicine/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250113T130000
DTEND;TZID=Europe/Stockholm:20250115T140000
DTSTAMP:20260404T010044
CREATED:20240626T141219Z
LAST-MODIFIED:20250109T070825Z
UID:10001290-1736773200-1736949600@www.scilifelab.se
SUMMARY:Evolution in Sweden 2025
DESCRIPTION:Evolution in Sweden is a biannual meeting\, which broadly gathers evolutionary biologists working in Sweden. \n\n\n\nThe meeting is aimed to be a broad meeting on every aspect of evolutionary biology and all forms of life on earth. However\, please note that the meeting is primarily (though not exclusively) for scientists active in Swedish academic departments. We also actively encourage younger researchers active in Sweden to present their research in this forum. \n\n\n\nThe Evolution in Sweden conference is organized together with the DDLS Evolution and Biodiversity research area\, within the Data-driven Life Science (DDLS) program\, part of a 12-year SEK 3.1 billion initiative from the Knut and Alice Wallenberg Foundation. We encourage researchers working with analysis of large data sets in the fields of evolution and biodiversity to attend.  \n\n\n\nStarts on January 13 at 13:00 and ends on January 15 at 14:00 \n\n\n\nVenue: Room C4\, C building\, Campus Valla\, Linköping University\, Hans Meijers väg 12\, Linköping.  \n\n\n\nRegistration is from 9.30 until 13.00 outside the lecture hall on the 13th January.  \n\n\n\n\n\n\n\nImportant information to participants: \n\n\n\nWelcome Reception \n\n\n\nRegistration and check-in from 09:30 to 13:00 on Monday\, January 13\, followed by lunch. Lunch is paid for by the attendees\, but we have booked a restaurant next to the venue. There is no registration fee\, but fika will be provided. Lunch\, Dinner\, and Hotel are not included in the registration. \n\n\n\nPoster presenters \n\n\n\nWe kindly ask you to hang your poster in the foyer-area outside C4 during the registration; pins will be provided. Make sure to stand by your poster during the odd or even poster session depending on your abstract/poster number. Odd abstract numbers on Jan 13 and even numbers on Jan 14. The size of each poster space is 85 x 190 cm\, so posters can be up to the standard A0 format (1189 x 841 mm) in size. \n\n\n\nOral presenters \n\n\n\nPlease upload your talk to the Dropbox directory you will be invited to in a separate email. Please ensure your presentation is uploaded by the evening before your scheduled talk. Name the file using the following format: Day_Time of your slot_Name.pdf (or .ppt). Example: Tuesday_1345_Berger.pdf. \n\n\n\nTechnical Considerations: The lecture hall computers run on Windows. If you are using a Mac\, we recommend saving your presentation in .pdf format to avoid formatting issues. A manned table will be set up near the registration desk outside the conference hall\, where you can check your presentation in advance (fonts\, animations etc). \n\n\n\nLunch \n\n\n\nThe cost of lunch is at everyone’s own expense. Lunch venue is booked at the University restaurant Kårallen\, situated in the next building down from the C-building (two minutes walk from the lecture hall). \n\n\n\nSocial activities \n\n\n\nWe have a poster session on the 13th and 14th outside the lecture theatre\, and have also highlighted a conference pub in town (O’Leary’s). This was picked because of its size\, but we don’t have any actual reservations (but it is pretty huge on the inside). It is located in the main square (Storatorget)\, and several other pubs are also located on the main square or on the next street (Ågatan) for those who want to meet for a drink in the evenings. \n\n\n\nWelcome! \n\n\n\nThe Evolution in Sweden Linköping organizing committee \n\n\n\nDominic Wright (chair)\, Rie Henriksen\, Per Jensen\, Urban Friberg and Krzysztof Bartoszek \n\n\n\nProgram\n\n\n\nProgram\n\n\n\nConference book\n\n\n\nAbstract book Evolution in Sweden 2025 v6Download\n\n\n\nRegistration\n\n\n\nRegister here\n\n\n\nTo avoid empty seats\, registration will remain open until the event begins. If we reach full capacity\, a waiting list will be activated. Sign up for the waiting list\, and you will automatically receive an email when a spot becomes available. You must accept within 24h to secure the spot. If you decline\, the offer will go to the next person on the waiting list.  \n\n\n\nMake sure to cancel your registration if you cannot attend the conference. To cancel: Search for “Confirmation: Evolution in Sweden 2025” in your inbox and cancel via that Cancellation link in your individual Confirmation letter. \n\n\n\n \n\n\n\nPlenary speakers\n\n\n\nTom Gilbert – Domestication hologenomics – how did our ancestors tame the wolf?\nUniversity of Copenhagen\, Denmark \n\n\n\nComparisons of the genomes of contemporary domestic animals and plants with those of their wild relatives\, have provided a wealth of insights into not only when and where our ancestors started the process\, but also what specific genetic variants are key to modern phenotypes. Furthermore\, once coupled to palaeogenomic data\, such datasets can also even reveal the order in which such variants arose\, shedding further insights into the process itself. However\, while there is no doubt that we have learnt much about domestication in general\, and indeed for most domestic species we can clearly document the genetic basis of why the end product differs from the start\, I argue that there may be certain processes that were involved that have been largely overlooked\, in particular related to the so-called hologenome. \n\n\n\nBiography: \n\n\n\nTom Gilbert is Professor of Palaeogenomics at the University of Copenhagen\, Professor II at NTNU University Museum\, and Director of the DNRF Center for Evolutionary Hologenomics. He holds a PhD in the study of ancient DNA from the University of Oxford\, and has been active in both trying to develop methods to both expand the potential of ancient DNA to our understanding of the past\, as well as more recently leading research aimed at revisiting our understanding of ecological and evolutionary processes using hologenomic techniques – ie the integrative approach of combining host genomes with those of their microbiome. \n\n\n\n\nKees Van Oers – The epigenetics of Animal Personality\nNetherlands Institute of Ecology/ Wageningen University\, The Netherlands \n\n\n\nEpigenetic mechanisms are those molecular mechanisms that affect gene expression without changing the DNA sequence. The value of epigenetic mechanisms is increasingly recognized\, also in relation to questions in ecology and evolution. However\, epigenetic research related to behavioural variation in the natural habitat is still in its infancy. The flexible nature of epigenetic marks opens the possibility that such changes are adaptive\, while at the same time may simply be the consequence of environmental variation. Hence\, changes in epigenetic marks can function as switches in order to help an organism develop\, as signals of aging via accumulation of methylation over time\, but they also may aid organisms to cope with changing circumstances throughout their lifetime. In this presentation\, I use data of our great tit system to show examples of how tissue and cell-specific epigenetic patterns\, mainly focusing on DNA methylation\, may affect behavioral phenotypes such as exploratory behavior and reversal learning performance. I discuss what the role is of epigenetic mechanisms for behavioral adaptation to changing environments. \n\n\n\nBiography: \n\n\n\nKees van Oers is an evolutionary behavioural ecologist. He currently holds a chair in Animal Personality at Wageningen University and is senior scientist at the Netherlands Institute of Ecology (NIOO-KNAW). His research focuses on explaining the causes and consequences of individual variation in animal behaviour\, mainly cognitive and animal personality traits. He does this from an ecological and evolutionary point of view\, at the crossroads between behavioural ecology and behaviour genetics. His goal is to find answers to fundamental and strategic questions related to individual responses to changing environments. This is relevant since the world and therefore the environment is constantly changing partly due to human influences affecting biodiversity at all functional levels. \n\n\n\n\nSusan Johnston – The causes and consequences of sex differences in recombination rates.\nInstitute of Ecology and Evolution\, School of Biology\, The University of Edinburgh\, UK \n\n\n\nThe rate of meiotic recombination often shows large differences between the sexes. It can be strongly female-biased (humans)\, strongly male-biased (macaques/sheep) or somewhere in between. Understanding why this happens is key to understanding the evolution of recombination rates\, yet the causes and consequences of this phenomenon remain unknown. This talk will focus on our most recent work in house sparrows (Passer domesticus)\, with broader context from work in mammals and fish. We use genomic data in large pedigrees to characterise individual recombination rates and landscapes to: (a) investigate the heritability and genomic basis of variation in recombination rates; (b) identify genomic correlates with fine-scale sex-differences in recombination landscapes; and (c) use genomic prediction approaches to understand the relationship between recombination and fitness within each sex. Our work provides a foundation for broader understanding of the vast diversity of recombination rates in eukaryotic genomes. \n\n\n\nBiography: \n\n\n\nSusan Johnston is an evolutionary quantitative geneticist based at the University of Edinburgh\, Scotland\, where she is a Senior Lecturer and Royal Society University Research Fellow. Her research centres on using genomic information to understand selection and evolution in both wild and domesticated populations. At the moment\, her group focusses on questions related to genomic signatures of sexual conflict\, the maintenance of genetic variation in immunity\, and the causes and consequence of recombination landscape variation. She does this by taking advantage of long-term ecological datasets and deep pedigrees with genomic data in mammals\, birds and fish. \n\n\n\n\nIf you have questions\, feel free to contact the organizer\, Dominic Wright\, dominic.wright@liu.se\, Professor in Genetics\, IFM Biology\, Linköping University. Regarding DDLS-related issues\, you can ask Matthews Webster or events@scilifelab.se.
URL:https://www.scilifelab.se/event/evolution-in-sweden-2025/
LOCATION:Linköping University\, Campus Valla\, Hans Meijers väg 12\, 583 29\, Linköping
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2024/06/EvoInSwedenSmallLogo.jpg
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250114T150000
DTEND;TZID=Europe/Stockholm:20250114T160000
DTSTAMP:20260404T010044
CREATED:20241112T105230Z
LAST-MODIFIED:20250110T150619Z
UID:10001401-1736866800-1736870400@www.scilifelab.se
SUMMARY:SciLifeLab Lund Seminar Series | Clinical Genomics Lund
DESCRIPTION:Welcome to the SciLifeLab Lund seminar series! \n\n\n\nThese seminars are designed to highlight SciLifeLab Lund\, our cutting-edge research infrastructure\, and the diverse resources available to the scientific community.  \n\n\n\nIn the 3rd seminar\, we will have a in-depth look at the Center Translational Genomics (CTG) within SciLifeLab Clinical Genomics\, a research infrastructure and technical platform for Next Generation Sequencing and other genomics technologies. CTG expertise and services promote translational research projects or projects aiming at clinical implementation of new diagnostic assays in healthcare. \n\n\n\nAfter a brief introduction of the unit by Julia Bräunig\, research engineer at CTG\, Ervin Ascic (Division of Molecular Medicine and Gene Therapy at Lund University) will present his talk “Reprogramming Solid Tumors into Dendritic Cells for Cancer Immunotherapy”. \n\n\n\nPlease note that the seminars are site only but the recordings are available HERE. \n\n\n\nRegistration\n\n\n\nRegister for the next seminars!\n\n\n\n29th January 2025 | CryoEM for Life Sciences at Lund University \n\n\n\nRegister Seminar January\n\n\n\n26th February 2025 | Display and Selection Technologies \n\n\n\nRegister Seminar February\n\n\n\n26th March 2025 | Lund University Bioimaging Centre (LBIC)  \n\n\n\nRegister Seminar March\n\n\n\n23rd April 2025 | Lund Protein Production Platform \n\n\n\nRegister Seminar April\n\n\n\n28th May 2025 | National Bioinformatics Infrastructure (NBIS) \n\n\n\nRegister Seminar May\n\n\n\n18th June | Structural Proteomics \n\n\n\nRegister Seminar June
URL:https://www.scilifelab.se/event/scilifelab-lund-seminar-series-ctg/
LOCATION:Belfragesalen\, BMC D15\, Klinikgatan 32\, Lund\, Sweden
CATEGORIES:Event
ORGANIZER;CN="SciLifeLab Lund":MAILTO:lund@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250114T150000
DTEND;TZID=Europe/Stockholm:20250114T160000
DTSTAMP:20260404T010044
CREATED:20241219T095942Z
LAST-MODIFIED:20250109T104128Z
UID:10001422-1736866800-1736870400@www.scilifelab.se
SUMMARY:Transcription Regulation\, One Molecule at a Time
DESCRIPTION:Speaker: Arnaud Krebs\, PhD\, EMBL Heidelberg \n\n\n\nAbstract\n\n\n\nTranscription factors (TFs) bind at cis-regulatory elements (CREs) such as enhancers and promoters to activate transcription. In higher eukaryotes\, chromatin presents a physical barrier that needs to be overcomedby TFs to access their DNA recognition motifs and activate transcription. Cooperativity is assumed to be a key mechanism for TFs to outcompete nucleosomes. Yet\, the contribution of individual TFs to chromatin accessibility at CREs\, and how their functions are assembled is currently not understood.   \n\n\n\nCurrent bulk assays used to map TF occupancy average binding events arising from millions of individual cells\, not informing on the potential cooperativity and the antagonisms that organize their binding at CRE. To move beyond this boundary\, we developed Single Molecule Footprinting (SMF) to quantify the binding of TFs at mouse regulatory regions.  The method allows to simultaneously measure the occurrence of multiple TFs\, nucleosomes and DNA methylation on individual molecules genome-wide.  \n\n\n\nI will illustrate how we leveraged this new layer of information to understand mechanisms of TF cooperativity and dissect the basic assembly rules used by TFs to open chromatin at CREs. Moreover\, I will elaborate on our efforts to leverage long-read sequencing to study the coordination of regulatory processes between enhancers and promoters that regulate the same gene. \n\n\n\nRelevant publications: \n\n\n\nSingle-molecule footprinting identifies context-dependent regulation of enhancers by DNA methylation. Kreibich E\,. et al. Molecular Cell. 2023 \n\n\n\nSingle molecule occupancy patterns of transcription factors reveal determinants of cooperative binding in vivo; Sönmezer\, C\, et al. Molecular Cell. 2021. \n\n\n\nStudying transcription factor function in the genome at molecular resolution. Krebs\, AR\, Trends in Genetics. 2021 \n\n\n\nBiography\n\n\n\nArnaud Krebs runs a lab in functional genomics at EMBL with a focus on the study of gene regulation mechanism.  \n\n\n\nIn his lab a new method was developed to perform single-molecule footprinting (SMF)\, a methodology to quantify protein–DNA contacts at the level of single DNA molecules and they were able to quantify the patterns of occupancy of transcription factors. The lab also revealed principles about the combinatorial action of transcription factors at regulatory regions. Using their single-molecule footprinting approach they identified that the binding of TFs on individual DNA molecules is influenced by DNA methylation.  \n\n\n\nThe lab has a strong reputation to study the multiple layers of regulatory information by developing high-throughput experimental and computational strategies. \n\n\n\n \n\n\n\nShort biosketch\n\n\n\n\nERC CoG investigator 2023.\n\n\n\nSince January 2018 – Group leader at EMBL Genome Biology Unit.\n\n\n\nAmbizione independent fellow at the FMI\, Basel\, Switzerland. \n\n\n\nPostdoctoral research at the Friedrich Miescher Institute for Biomedical Research (FMI)\, Basel\, Switzerland. Advisor: Dirk Schübeler\n\n\n\nPhD\, 2011\, IGBMC\, Strasbourg\, France. Advisor: Laszlo Tora\n\n\n\nMasters in Molecular Biology (Uni Nancy\, France) and Bioinformatics (Uni Pierre and Marie Curie\, Paris)\n\n\n\n\n\n\n\n\nThe seminar will be followed by a fika (coffee break) where young scientists (PhD students and postdocs) can meet the speaker and ask questions about the seminar and his scientific career. \n\n\n\nRegister for Meet the Speaker fika
URL:https://www.scilifelab.se/event/transcription-regulation-one-molecule-at-a-time/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2023/10/Campus-solna-seminar-picture.jpg
ORGANIZER;CN="Spotlight Seminar Series":MAILTO:events@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250116T100000
DTEND;TZID=Europe/Stockholm:20250116T110000
DTSTAMP:20260404T010044
CREATED:20241129T082550Z
LAST-MODIFIED:20241202T150108Z
UID:10001410-1737021600-1737025200@www.scilifelab.se
SUMMARY:Publishing Shiny apps as a researcher
DESCRIPTION:Title: Publishing Shiny apps as a researcher \n\n\n\nSpeaker: SciLifeLab Data Centre team \n\n\n\nWhere and when: January 16\, 2025 at 10:00-11:00 Stockholm time\, online. Registration is open till January 16 at 9:00. \n\n\n\nAbstract: Shiny is a popular framework for building interactive web apps with visualizations\, tables\, analysis tools\, etc. using R. Researchers often create Shiny applications as part of their projects and want to publish them as supplementary materials for publications\, presentations\, and other purposes. However\, finding a venue to publish (in other words\, to host) a Shiny app is challenging because existing commercial platforms are not optimized for use by researchers and impose limitations on the speed of the applications and volume of visitors in their free tier. \n\n\n\nIn this webinar\, we will demonstrate Shiny app publication through SciLifeLab Serve — a newly developed platform that is free to use for all life science researchers in Sweden and offers dedicated resources for long-term hosting. We will discuss how to prepare a Shiny app for sharing and provide a step-by-step demonstration of how to start hosting it and obtain a public URL to share with the world. After this webinar you should be able to do this yourself for your own Shiny apps. Additionally\, we will discuss requirements from funders and research institutions when publishing Shiny applications as research output. \n\n\n\nIf you are a researcher with an existing Shiny app you’d like to publish\, or if you plan to build a Shiny app in the future\, this webinar is for you. \n\n\n\nRegister to join the event\n\n\n\nMore about SciLifeLab Serve: \n\n\n\nSciLifeLab Serve (https://serve.scilifelab.se) is a platform developed by SciLifeLab Data Centre and available free of charge to researchers affiliated with all research institutions in Sweden. The platform development is funded by the Data-Driven Life Science Programme at SciLifeLab. SciLifeLab Serve offers machine learning model serving as well as application hosting tools optimized for life science research needs\, open science principles\, and FAIR requirements. \n\n\n\nFor questions about the events please contact the organizing team by emailing  serve@scilifelab.se  \n\n\n\nScientific lead: Prof. Ola Spjuth\, SciLifeLab Data Centre and Uppsala University \n\n\n\nContact information: serve@scilifelab.se
URL:https://www.scilifelab.se/event/publishing-shiny-apps/
LOCATION:Online event via Zoom
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250116T140000
DTEND;TZID=Europe/Stockholm:20250116T160000
DTSTAMP:20260404T010044
CREATED:20241118T134829Z
LAST-MODIFIED:20250113T130421Z
UID:10001403-1737036000-1737043200@www.scilifelab.se
SUMMARY:NGI OpenLab Launch Event
DESCRIPTION:This seminar marks the launch of NGI OpenLab\, a new lab space at SciLifeLab in Uppsala (BMC). NGI OpenLab will be a resourceful\, interactive space with equipment for quality control (QC)\, library preparation and a walk-up sequencer for on-the-go sequencing needs. \n\n\n\nOur mission is to create a collaborative environment where researchers can gain hands-on experience\, attend training sessions\, and participate in courses that deepen their skills in genomics. \n\n\n\nFollowing the seminar\, we warmly invite you to join us for a mingle session in Navet. This will be an excellent opportunity to connect with the NGI staff\, share your ideas and research needs\, and explore the newly opened NGI OpenLab space. We look forward to seeing you there! \n\n\n\nOrganizer: SciLifeLab National Genomics Infrastructure \n\n\n\nCONTACT FOR QUESTIONS: \n\n\n\nJohanna Lagensjö\, Head of Laboratory Operations\, NGI Uppsala (SNP&SEQ Technology Platform)\, johanna.lagensjo@medsci.uu.se \n\n\n\nThe registration has closed! \n\n\n\n\n\n\n\nProgram\n\n\n\n\n14:00-15:00WelcomeAristidis Moustakas & Anna Dimberg\, on behalf of the SciLifeLab-UU SFO CommitteeIntroduction to NGI services and the idea behind NGI OpenLabLars Feuk\, NGI Platform Co-DirectorNGI OpenLab in practice\, how does it work?Johanna Lagensjö\, Head of Laboratory Operations\, NGI UppsalaLibrary prep at NGI – opportunities for method development in the NGI OpenLabAmanda Raine\, Head of R&D\, NGI Uppsala15:00 and onMingle in Navet and tour to the NGI OpenLabLight snacks and drinks will be served
URL:https://www.scilifelab.se/event/ngi-openlab-launch-event/
LOCATION:Navet\, SciLifeLab Uppsala\, SciLifeLab Uppsala\, BMC C11\, Husargatan 3\, Uppsala\, 75237\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2024/11/NGI-logga.png
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250117T100000
DTEND;TZID=Europe/Stockholm:20250117T130000
DTSTAMP:20260404T010044
CREATED:20250107T134920Z
LAST-MODIFIED:20250107T153009Z
UID:10001425-1737108000-1737118800@www.scilifelab.se
SUMMARY:KTH: Building and sharing machine learning demo applications
DESCRIPTION:This event is open to everyone at KTH. It consists of a workshop followed by a free lunch for all participants.  \n\n\n\nTitle: Building and sharing machine learning demo applications: a practical tutorial. \n\n\n\nOrganizer: KTH Library staff and AI Data Engineers from the SciLifeLab Serve team. \n\n\n\nWhere and when: January 17\, 2025 at 10:00-13:00 at KTH Library\, room Salongen\, floor 2. Address: Osquars backe 31\, Stockholm\, on the map \n\n\n\nAgenda:10:00-12:00: Workshop12:00-13:00: Lunch \n\n\n\nAbstract: It is becoming increasingly popular to share machine learning models with the community as web applications with an easy-to-use interface. Users can then adjust parameters or submit their own input and see the predictions generated by the underlying model. This tutorial is aimed at KTH researchers (all career levels welcome) who work with machine learning models but do not have the skills to build interactive applications for web. During the tutorial we will start from a trained model and demonstrate step by step how you can create a graphical user interface for your application\, prepare it for deployment\, and make it available on the web with a URL. We will demonstrate the use of specific tools which make this process easy and doable in under an hour\, specifically we will demonstrate and try out Gradio for app building. We will also demonstrate SciLifeLab Serve\, a platform for hosting models and applications available to all researchers in Sweden. \n\n\n\nLunch: After the workshop all participants are invited for lunch. During the lunch participants will have an opportunity to informally chat with KTH Library staff and SciLifeLab Data Centre to discuss the needs for services and research infrastructure in research using machine learning methods. \n\n\n\nCapacity: We have room to accept 35 participants\, on the first come first served basis. Those registered after that will be placed on the waiting list and offered a spot when someone cancels. \n\n\n\nSince there is a limited number of spots in this workshop please sign up only if you intend to attend. \n\n\n\nRegister to join the event\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 \n\n\n\nContact information: serve@scilifelab.se
URL:https://www.scilifelab.se/event/kth-building-and-sharing-machine-learning-demo-applications/
LOCATION:KTH Library\, room Salongen\, Osquars backe 31\, Stockholm\, 11428\, Sweden
CATEGORIES:Event
END:VEVENT
END:VCALENDAR