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DTSTART;TZID=Europe/Stockholm:20220829T080000
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DTSTAMP:20260414T180826
CREATED:20220524T092955Z
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UID:83840-1661760000-1662138000@www.scilifelab.se
SUMMARY:Spatial omics data analysis
DESCRIPTION:This workshop provides resources to advanced tools for analysis of spatial datasets via a series of online lectures and computer practicals. The total course duration is 40 hours\, including the online lectures and practical coding workshop that will be held online. \n\n\n\nImportant dates\n\n\n\nApplication open: 2022-05-20 \n\n\n\nApplication deadline: 2022-07-31 \n\n\n\n\n\n\n\nCourse Leaders\n\n\n\nPaulo CzarnewskiChristophe Avenel\n\n\n\n\n\n\n\nLecturers and content creators\n\n\n\nLars BormCarolina WählbyGiovanni PallaNaveed IshaqueAnna SchaarDavid FischerHanna SpitzerSergio SallasÅsa BjörklundSebastian TiesmeyerLudvig BergenstråleEduard Chelebian\n\n\n\n\n\n\n\nContact information and Application\n\n\n\n\n\n\n\n\nCourse website\n\n\n\nEmail\n\n\n\nApplication\n\n\n\n\n\n\n\n\nCourse fee\n\n\n\nThis workshop is free of charge. \n\n\n\n\n\n\n\nCourse content\n\n\n\nTopics covered will include \n\n\n\nHands-on experience with ST (Visium)\, ISS\, scRNAseq data analysisFluorescence-based image formats\, standards and quality controlImage alignment\, registration and ISS decodingNuclei-based and segmentation-free cell identificationData imputation using ISS and single cell datasetsAnalysis of Spatial Transcriptomics datasetCell-type deconvolution (ST and single cell)Cell-cell and ligand-receptor interaction analysisMapping of multiple spatial data to a common referenceHigh-resolution projection of gene expression to H&E imagesInteractive visualisation of spatial omics data\n\n\n\n\n\n\n\nWho can apply?\n\n\n\nThis is an international course hosted by the National Bioinformatics Infrastructure Sweden (ELIXIR-SE) in collaboration with the Human Developmental Cell Atlas (HDCA)\, the Royal Institute of Technology\, Stockholm University\, Karolinska Institutet\, Uppsala University\, Charité Clinical University (ELIXIR-DE)\, Helmholtz Munich (Germany) and the European Molecular Biology Organisation. The course is open for PhD students\, postdocs\, group leaders and core facility staff working on spatial omics technologies. \n\n\n\nPlease note that NBIS training events do not provide any formal university credits. The training content is estimated to correspond to a certain number of credits\, however the estimated credits are just guidelines. If formal credits are crucial\, the student needs to confer with the home department before submitting a course application in order to establish whether the course is valid for formal credits or not. \n\n\n\nPractical exercises will be performed in Python\, so we only accept students that fulfill the entry requirements (see below). \n\n\n\n\n\n\n\nEntry requirements\n\n\n\nRequired for being able to follow the course and complete the practical exercises: \n\n\n\nBasic knowledge in PythonBe able to use your own computer with a web cameraHave miniconda3 installed in your computerDesirable: Previous experience with single cell RNA-seq analysis is an advantage.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.\n\n\n\nDue to limited space the course can accommodate a maximum of 32 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/spatial-omics-data-analysis/
LOCATION:Online event via Zoom
CATEGORIES:Course
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2022/03/AdobeStock_218922152_front-scaled.jpg
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
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