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X-WR-CALDESC:Events for SciLifeLab
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BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210518T151500
DTEND;TZID=Europe/Stockholm:20210518T161500
DTSTAMP:20210512T085641Z
CREATED:20210428T094603Z
LAST-MODIFIED:20210512T085641Z
UID:10000369-1621350900-1621354500@www.scilifelab.se
SUMMARY:Statistical and machine learning techniques in microbiome research
DESCRIPTION:Leo Lahti\n\n\n\nDepartment of Computing\, University of Turku\, Turku\, Finland \n\n\n\nLINK TO SEMINAR \n\n\n\nLeo Lahti is associate professor in data science in University of Turku\, Finland. After completing his PhD in Aalto University\, Finland\, in 2010 he carried out several years of postdoctoral research in The Netherlands and Belgium on population studies of the human microbiome. Lahti has organized various international training events in microbiome bioinformatics\, and he is the Finnish coordinator of the COST action on statistical and machine learning methods in microbiome studies. \n\n\n\nStatistical and machine learning techniques in microbiome research\n\n\n\nThe diverse microbial communities living in human body have a profound influence on our well-being. Human microbiome research has expanded rapidly following the recent advances in high-throughput DNA sequencing and other omics’ technologies. Consequently\, the demand for targeted computational methods has increased significantly in the recent years. We have a limited understanding of the overall mechanisms that control the observed variation and activity of these microbial ecosystems. Our observations have contributed to the systematic characterization of the individual dynamics and population variation of the human microbiome. I will discuss contemporary topics in statistical analysis and machine learning related to microbiome research\, with a specific emphasis on probabilistic latent variable models in understanding the individual and dynamic variation across the landscape of microbiome composition. \n\n\n\nHost: Anders Andersson \n\n\n\nRead more about Leo Lahti´s research
URL:https://www.scilifelab.se/event/statistical-and-machine-learning-techniques-in-microbiome-research/
CATEGORIES:Event
ORGANIZER;CN="The Svedberg Seminar Series":MAILTO:thesvedberg@scilifelab.uu.se
LOCATION:https://www.scilifelab.se/event/statistical-and-machine-learning-techniques-in-microbiome-research/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210510T131500
DTEND;TZID=Europe/Stockholm:20210510T140000
DTSTAMP:20210507T075745Z
CREATED:20210428T092922Z
LAST-MODIFIED:20210507T075745Z
UID:10000367-1620652500-1620655200@www.scilifelab.se
SUMMARY:A more sustainable chemistry with elemental sulfur
DESCRIPTION:Thanh Binh Nguyen\n\n\n\nUniversité Paris-Saclay\, France\n\n\n\nLINK TO THE SEMINAR\n\n\n\nAbstract\n\n\n\nFacing a more and more rapid depletion of natural resources\, one of the most challenging problems to be solved of modern organic chemistry is to develop reactions enabling access to target molecules from simple and readily available starting materials with higher efficiency in number of atoms while reducing the number of steps\, unnecessary redox changes and waste. With this idea in mind\, we have been concentrating on the use of elemental sulfur – an abundant waste of oil and gas industry with annual product up to 70 MT –  as a polyvalent synthetic tool. This lecture will focus on organic redox reactions developed in our laboratory involving this element as a new synthetic strategy that satisfies most of the requirements of a more sustainable chemistry. \n\n\n\nBiography\n\n\n\nThanh Binh Nguyen received his BS degree (2004) from the University of Natural Sciences in Hochiminh city\, Vietnam and subsequently his MS (2005) and PhD degrees (2008) from the the Université du Maine – Le Mans -France. After a two-year postdoctoral stay at the Institut de Chimie des Substances Naturelles – Gif-sur-Yvette – France\, he obtained a permanent research associate position (Chargé de Recherche) of the Centre National de la Recherche Scientifique (CNRS) in 2011\, working in the same institute. His main research interest is the development of new synthetic methods for carbon-nitrogen bond formation with a strong emphasis on using elemental sulfur\, molecular iodine and iron–sulfur catalysts. \n\n\n\nHost\n\n\n\nDuc Duy Vo\, Uppsala University
URL:https://www.scilifelab.se/event/a-more-sustainable-chemistry-with-elemental-sulfur/
CATEGORIES:Event
ORGANIZER;CN="The Svedberg Seminar Series":MAILTO:thesvedberg@scilifelab.uu.se
LOCATION:https://uu-se.zoom.us/j/65768822626
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210507T100000
DTEND;TZID=Europe/Stockholm:20210507T120000
DTSTAMP:20210428T092313Z
CREATED:20210428T092256Z
LAST-MODIFIED:20210428T092313Z
UID:10000366-1620381600-1620388800@www.scilifelab.se
SUMMARY:SciLifeLab Data Repository Launch
DESCRIPTION:SciLifeLab Data Centre invites you to join the launch of the SciLifeLab Data Repository! The event will feature presentations of the repository by representatives from Data Centre and Figshare\, presentation of the user perspective of the repository and opportunities to ask questions.   \n\n\n\nRegister to the launch event to learn more about the SciLifeLab Data Repository and how it can be of use to you! \n\n\n\n \n\n\n\nIntroductionJohan Rung – Head of Data Centre\, SciLifeLabStoring\, sharing\, and citing your data with SciLifeLab’s FigshareMegan Hardeman – Head of Engagement at FigshareUser perspectives:Vicent Pelechano – Researcher at the Department of Microbiology\, Tumor and Cell Biology\, Karolinska Institutet and SciLifeLab FellowJonne Rietdijk – PhD student at the Department of Pharmaceutical Biosciences\, Uppsala UniversityMikael Sellin – Senior lecturer/Associate Professor at the Departement of Medical Biochemistry and Microbiology\, Uppsala University and SciLifeLab FellowFAIR as a factor for bigger research impactWolmar Nyberg Åkerström – Data Steward at NBISQ&A sessionModerated by Data Centre\n\n\n\n\n\n\n\n\nAbout the SciLifeLab Data Repository\n\n\n\nThe SciLifeLab Data Repository\, powered by Figshare\, is a repository for publishing any kind of research-related data\, e.g. documents\, figures\, or presentations. Figshare is an open data repository used by researchers in numerous disciplines. Through an agreement with Figshare\, SciLifeLab offers researchers and units the opportunity to upload and publish their research data through a dedicated portal. The purpose of the SciLifeLab Data Repository is to serve publishing of data.  \n\n\n\n\nContact: datacentre@scilifelab.se
URL:https://www.scilifelab.se/event/scilifelab-data-repository-launch/
CATEGORIES:Event
ORGANIZER;CN="SciLifeLab Data Centre":MAILTO:datacentre@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210504T090000
DTEND;TZID=Europe/Stockholm:20210504T100000
DTSTAMP:20210428T091856Z
CREATED:20210428T091829Z
LAST-MODIFIED:20210428T091856Z
UID:10000365-1620118800-1620122400@www.scilifelab.se
SUMMARY:BioImage Informatics Call4Help
DESCRIPTION:The April version of the Call4Help session will be a “special edition”. We will present ZeroCostDL4Mic. ZeroCostDL4Mic is a toolbox for the training and implementation of common Deep Learning approaches to microscopy imaging. It exploits the ease-of-use and access to GPU provided by Google Colab. https://github.com/HenriquesLab/ZeroCostDL4Mic/wiki \n\n\n\nPresenter:Petter Ranefall\, BIIF \n\n\n\nTime and location:4 May 2021 (Tuesday)\, 09:00 – 10:00 AMzoom (link will be sent to registered users)
URL:https://www.scilifelab.se/event/bioimage-informatics-call4help/
CATEGORIES:Event
ORGANIZER;CN="Bioimage Informatics Unit":MAILTO:biif@scilifelab.se
LOCATION:
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210426T120000
DTEND;TZID=Europe/Stockholm:20210426T130000
DTSTAMP:20210414T085517Z
CREATED:20210414T085430Z
LAST-MODIFIED:20210414T085517Z
UID:10000362-1619438400-1619442000@www.scilifelab.se
SUMMARY:Nationella studier av värdet av breda genpaneler och helgenomsekvensering för patienter med hematologiska maligniteter
DESCRIPTION:Flera internationella studier tyder på att storskalig sekvensering kan förbättra diagnostik och behandling av patienter med hematologiska maligniteter. Arbetsutskottet för hematologi inom Genomic Medicine Sweden har initierat två nationella studier för att utvärderat potentialen av breda genpaneler och helgenomsekvenserig i svensk sjukvård. I det här webbinariet kommer vi informera om upplägget för studierna och diskutera detaljer kring patientrekrytering och genomförande. \n\n\n\nMålgrupp: Vi vänder oss till hematologer\, forskningssjuksköterskor\, diagnostiker\, laboratoriepersonal och bioinformatiker som arbetar med hematologiska maligniteter i Sverige\, samt alla andra professioner med intresse av frågan. \n\n\n\nDag och tid: 13 och 26 april\, kl 12-13 (samma webbinarium ges vid två tillfällen)Plats: Digitalt via Zoom https://uu-se.zoom.us/j/61739315319 \n\n\n\nVid webbinariet kommer följande nyckelfrågor att tas upp: \n\n\n\nHur ser etikansökan för studierna ut?Hur är studieupplägget för genpaneler?Hur är studieupplägget för helgenomsekvensering?\n\n\n\nMedverkande: \n\n\n\nRichard Rosenquist Brandell\, överläkare i klinisk genetik och föreståndare GMSThoas Fioretos\, överläkare i klinisk genetik och co-chair GMS HematologiMartin Höglund\, överläkare i hematologi och f.d. ordförande Svenska AML-gruppenLucia Cavelier\, sjukhusgenetiker och co-chair GMS Hematologi\n\n\n\nAnmälan: Ingen formell anmälan behövs. Anslut bara till länken på utsatt tid. \n\n\n\n\n\n\n\nProgram \n\n\n\n12.00-12.10Välkomna\, Introduktion till GMS och GMS hematologiRichard Rosenquist Brandell\, överläkare i klinisk genetik och föreståndare GMSThoas Fioretos\, överläkare i klinisk genetik och co-chair GMS Hematologi \n\n\n\n12.10-12.20Upplägg för etikansökan och samtyckesblankettThoas Fioretos\, överläkare i klinisk genetik och co-chair GMS HematologiMartin Höglund\, överläkare i hematologi och f.d. ordförande Svenska AML-gruppen \n\n\n\n12.20-12-30Studieupplägg för genpanelerLucia Cavelier\, sjukhusgenetiker och co-chair GMS Hematologi \n\n\n\n12.30-12.40Studieupplägg för helgenomsekvenseringRichard Rosenquist Brandell\, överläkare i klinisk genetik och föreståndare GMS \n\n\n\n12.40-13.00Frågor\, diskussion \n\n\n\n\n\n\n\nOm du har frågor om webbinariet är du välkommen att kontakta Eva Berglund\, eva.berglund@scilifelab.uu.se
URL:https://www.scilifelab.se/event/nationella-studier-av-vardet-av-breda-genpaneler-och-helgenomsekvensering-for-patienter-med-hematologiska-maligniteter/2021-04-26/
CATEGORIES:Event
LOCATION:https://uu-se.zoom.us/j/61739315319
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210423T131000
DTEND;TZID=Europe/Stockholm:20210423T140000
DTSTAMP:20210414T084942Z
CREATED:20210414T084939Z
LAST-MODIFIED:20210414T084942Z
UID:10000359-1619183400-1619186400@www.scilifelab.se
SUMMARY:The open source ecosystem for genome-scale metabolic models
DESCRIPTION:Mihail Anton\, National Bioinformatics Infrastructure Sweden \n\n\n\nWhen: April 23\, 13:10  \n\n\n\nZoom link to the seminar: https://stockholmuniversity.zoom.us/j/68215564760 \n\n\n\nHost: Rui Benfeitas\, Stockholm University \n\n\n\nAbstract\n\n\n\nAs science is advancing towards full reproducibility\, the ecosystem of tools and resources for genome-scale metabolic modelling is increasingly open-source. The talk will showcase how Metabolic Atlas is contributing to this ecosystem by integrating several open-source GEMs\, and providing visualisations for these\, with the aim of aiding discovery of disease-related alterations of metabolism.
URL:https://www.scilifelab.se/event/the-open-source-ecosystem-for-genome-scale-metabolic-models/
CATEGORIES:Event
ORGANIZER;CN="Rui Benfeitas%2C SciLifeLab/Stockholm University":MAILTO:rui.benfeitas@scilifelab.se
LOCATION:https://stockholmuniversity.zoom.us/j/68215564760
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210423T110000
DTEND;TZID=Europe/Stockholm:20210423T120000
DTSTAMP:20210414T085116Z
CREATED:20210414T085113Z
LAST-MODIFIED:20210414T085116Z
UID:10000360-1619175600-1619179200@www.scilifelab.se
SUMMARY:Systems biology approaches for translational cancer research
DESCRIPTION:Francesco Gatto\, CSO Elypta\, Sweden \n\n\n\nWhen: April 23\, 11:00  \n\n\n\nZoom: https://stockholmuniversity.zoom.us/j/68215564760 \n\n\n\nHost: Rui Benfeitas\, Stockholm University \n\n\n\nAbstract\n\n\n\nIn this seminar\, I will illustrate how we investigated regulation of cancer metabolism using systems biology approaches and leading to the discovery of potential disease biomarkers. The talk will further focus on the challenge to translate fundamental discoveries in clinical practice and the foundation of Elypta – a start-up university spin-off that is executing this transition.
URL:https://www.scilifelab.se/event/systems-biology-approaches-for-translational-cancer-research/
CATEGORIES:Event
ORGANIZER;CN="Rui Benfeitas%2C SciLifeLab/Stockholm University":MAILTO:rui.benfeitas@scilifelab.se
LOCATION:https://stockholmuniversity.zoom.us/j/68215564760
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210422T150000
DTEND;TZID=Europe/Stockholm:20210422T160000
DTSTAMP:20210414T084407Z
CREATED:20210414T084404Z
LAST-MODIFIED:20210414T084407Z
UID:10000358-1619103600-1619107200@www.scilifelab.se
SUMMARY:The evolution of human Genome Scale Metabolic models
DESCRIPTION:Jonathan Robinson\, Scientific Data Developer Bioinnovation Institute\, Denmark \n\n\n\nWhen: April 22\, 15:00 \n\n\n\nZoom: https://stockholmuniversity.zoom.us/j/68215564760 \n\n\n\nHost: Rui Benfeitas\, Stockholm University \n\n\n\nAbstract\n\n\n\nMetabolism provides the energy and building blocks necessary to support life\, but the complexity of the metabolic network presents a challenge when trying to determine how changes to one component affects the system as a whole. Genome-scale metabolic models (GEMs) were developed to address this challenge by providing computational reconstructions of metabolic networks. GEMs have been developed for hundreds of species including humans\, supporting new approaches to study human health and disease.In my talk\, I will present our work in developing the most recent human GEM\, Human1\, and the different ways in which the model can be used to interpret omics data in a metabolic context. I will also share the challenges that we faced while developing Human1\, and the challenges that we still face over a year after its initial release in 2020. Finally\, I will discuss how we envision the future of GEMs\, and our efforts to make them more accessible and useful for bioinformaticians.
URL:https://www.scilifelab.se/event/the-evolution-of-human-genome-scale-metabolic-models/
CATEGORIES:Event
ORGANIZER;CN="Rui Benfeitas%2C SciLifeLab/Stockholm University":MAILTO:rui.benfeitas@scilifelab.se
LOCATION:https://stockholmuniversity.zoom.us/j/68215564760
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210421T131500
DTEND;TZID=Europe/Stockholm:20210421T140000
DTSTAMP:20210414T084111Z
CREATED:20210414T084108Z
LAST-MODIFIED:20210414T084111Z
UID:10000357-1619010900-1619013600@www.scilifelab.se
SUMMARY:Data-driven approaches towards studying context-specific cell signalling
DESCRIPTION:Evangelia Petsalaki\, Group Leader EMBL/EBI\, United Kingdom \n\n\n\nWhen: April 21\, 13:15 \n\n\n\nZoom: https://stockholmuniversity.zoom.us/j/68215564760 \n\n\n\nHost: Rui Benfeitas\, Stockholm University \n\n\n\nAbstract\n\n\n\nOur group aims to understand and describe the organisation principles of cell signalling that allow the diverse and context-specific cell responses and phenotypes.It is well established that signalling responses happen through complex networks. However\, most signalling research still uses linear pathways as the ground truth. Moreover\, signalling responses are highly dependent on context\, such as tissue type\, genetic background etc and therefore these static pathways are not always suitable. There is also a high bias in the literature towards kinases and pathways for which reagents and prior knowledge is readily available. This leaves a huge dark space in our understanding of cell signalling and significantly hinders studies of its general principles.In this talk I will present two projects where we try to mitigate some of the above issues. For the first one I will present CEN-tools\, an integrative webserver and python package\, that allows users to navigate the contexts of different gene essentialities. I will demonstrate examples of its use in discovering new gene-gene relationships and important putative signalling targets for different cancers. For the second one I will present a method that combines paired transcriptomics and imaging data to extract context-specific signalling networks\, with the context in this case cell shape in breast cancer. The method is generalisable to any paired transcriptomics/phenotype data.
URL:https://www.scilifelab.se/event/data-driven-approaches-towards-studying-context-specific-cell-signalling/
CATEGORIES:Event
ORGANIZER;CN="Rui Benfeitas%2C SciLifeLab/Stockholm University":MAILTO:rui.benfeitas@scilifelab.se
LOCATION:https://stockholmuniversity.zoom.us/j/68215564760
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210420T100000
DTEND;TZID=Europe/Stockholm:20210420T120000
DTSTAMP:20210414T083002Z
CREATED:20210414T081421Z
LAST-MODIFIED:20210414T083002Z
UID:10000356-1618912800-1618920000@www.scilifelab.se
SUMMARY:NGI webinar on Spatial Transcriptomics 10X Visium
DESCRIPTION:The National Genomics Infrastructure (NGI) at SciLifeLab invites you to participate in a webinar on the Spatial Transcriptomics 10X Visium technology.  \n\n\n\nSpatially resolved transcriptomics\, recently pronounced Method of the Year by Nature Methods\, has undoubtedly changed the way we understand complex tissues.  With the recent launch of the 10X Genomics Visium assay\, we can now offer spatially resolved transcriptome-wide analysis in tissue sections\, right here at NGI!  \n\n\n\nThis webinar will serve as a guide through how the technology has evolved\, how the protocol is run\, and how spatial transcriptomics data can be analysed.  \n\n\n\nOur line-up of talks include speakers from NGI and the Spatial Research lab\, as well as two keynote speakers; Dr. Alessondra Speidel\, who will present how Spatial Transcriptomics has helped her understand how wound healing responds to different hydrogel materials\, and Dr. James Chell\, a Senior Scientist at 10X Genomics who will update us on the Visium spatial platform and its FFPE application.  \n\n\n\nInterested? Find out more how NGI can support projects that can benefit from 10X Genomics Visium.
URL:https://www.scilifelab.se/event/ngi-webinar-on-spatial-transcriptomics-10x-visium/
CATEGORIES:Event
ORGANIZER;CN="National Genomics Infrastructure (NGI)":MAILTO:support@ngisweden.se
LOCATION:https://www.scilifelab.se/event/ngi-webinar-on-spatial-transcriptomics-10x-visium/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210413T120000
DTEND;TZID=Europe/Stockholm:20210413T130000
DTSTAMP:20210414T085517Z
CREATED:20210414T085430Z
LAST-MODIFIED:20210414T085517Z
UID:10000361-1618315200-1618318800@www.scilifelab.se
SUMMARY:Nationella studier av värdet av breda genpaneler och helgenomsekvensering för patienter med hematologiska maligniteter
DESCRIPTION:Flera internationella studier tyder på att storskalig sekvensering kan förbättra diagnostik och behandling av patienter med hematologiska maligniteter. Arbetsutskottet för hematologi inom Genomic Medicine Sweden har initierat två nationella studier för att utvärderat potentialen av breda genpaneler och helgenomsekvenserig i svensk sjukvård. I det här webbinariet kommer vi informera om upplägget för studierna och diskutera detaljer kring patientrekrytering och genomförande. \n\n\n\nMålgrupp: Vi vänder oss till hematologer\, forskningssjuksköterskor\, diagnostiker\, laboratoriepersonal och bioinformatiker som arbetar med hematologiska maligniteter i Sverige\, samt alla andra professioner med intresse av frågan. \n\n\n\nDag och tid: 13 och 26 april\, kl 12-13 (samma webbinarium ges vid två tillfällen)Plats: Digitalt via Zoom https://uu-se.zoom.us/j/61739315319 \n\n\n\nVid webbinariet kommer följande nyckelfrågor att tas upp: \n\n\n\nHur ser etikansökan för studierna ut?Hur är studieupplägget för genpaneler?Hur är studieupplägget för helgenomsekvensering?\n\n\n\nMedverkande: \n\n\n\nRichard Rosenquist Brandell\, överläkare i klinisk genetik och föreståndare GMSThoas Fioretos\, överläkare i klinisk genetik och co-chair GMS HematologiMartin Höglund\, överläkare i hematologi och f.d. ordförande Svenska AML-gruppenLucia Cavelier\, sjukhusgenetiker och co-chair GMS Hematologi\n\n\n\nAnmälan: Ingen formell anmälan behövs. Anslut bara till länken på utsatt tid. \n\n\n\n\n\n\n\nProgram \n\n\n\n12.00-12.10Välkomna\, Introduktion till GMS och GMS hematologiRichard Rosenquist Brandell\, överläkare i klinisk genetik och föreståndare GMSThoas Fioretos\, överläkare i klinisk genetik och co-chair GMS Hematologi \n\n\n\n12.10-12.20Upplägg för etikansökan och samtyckesblankettThoas Fioretos\, överläkare i klinisk genetik och co-chair GMS HematologiMartin Höglund\, överläkare i hematologi och f.d. ordförande Svenska AML-gruppen \n\n\n\n12.20-12-30Studieupplägg för genpanelerLucia Cavelier\, sjukhusgenetiker och co-chair GMS Hematologi \n\n\n\n12.30-12.40Studieupplägg för helgenomsekvenseringRichard Rosenquist Brandell\, överläkare i klinisk genetik och föreståndare GMS \n\n\n\n12.40-13.00Frågor\, diskussion \n\n\n\n\n\n\n\nOm du har frågor om webbinariet är du välkommen att kontakta Eva Berglund\, eva.berglund@scilifelab.uu.se
URL:https://www.scilifelab.se/event/nationella-studier-av-vardet-av-breda-genpaneler-och-helgenomsekvensering-for-patienter-med-hematologiska-maligniteter/2021-04-13/
CATEGORIES:Event
LOCATION:https://uu-se.zoom.us/j/61739315319
END:VEVENT
END:VCALENDAR