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DTSTART;TZID=Europe/Stockholm:20211025T080000
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UID:54225-1635148800-1635526800@www.scilifelab.se
SUMMARY:Epigenomics Data Analysis: from Bulk to Single Cell (ONLINE)
DESCRIPTION:National workshop open for PhD students\, postdocs\, researchers and other employees within Swedish academia. This course is run by the National Bioinformatics Infrastructure Sweden (NBIS) \n\n\n\n \n\n\n\n\nCourse website\n\n\n\nApplication\n\n\n\n\nImportant dates\n\n\n\nApplication opens:  nowApplication closes: 2021-10-10Confirmation to accepted students:  2021-10-14 \n\n\n\nResponsible teachers\n\n\n\nAgata Smialowska\, Olga Dethlefsen\, Jakub WestholmPlease contact edu.epigenomics@nbis.se for course specific questions. \n\n\n\nWorkshop fee\n\n\n\nThis online training event has no fee. However\, if you accept a position at the workshop and do not participate (no-show) you will be invoiced 2000 SEK.  \n\n\n\n*Please note that NBIS cannot invoice individuals. \n\n\n\nWorkshop content\n\n\n\nThis workshop aims to introduce the best practice bioinformatics methods for processing\, analyses and integration of epigenomics and functional genomics data. \n\n\n\nTopics covered include\n\n\n\nData processing and analyses for differential methylation with Illumina EPIC arrays and Bisulfite-seq;ChIP-seq and ATAC-seq: peak calling\, peak independent/dependent quality metrics\, differential binding and differential accessibility analysis; motif enrichment;Functional analysis\, including finding nearest genes and custom features\, over-represented GO terms and Reactome pathways;Advanced ChIP methods: CUT&RUN\, CUT&Tag\, use of spike-ins in ChIP-seq;Integrative visualisations of epigenomics datasets;Introduction to nf-core pipelines for processing and analysis of epi- and functional genomics data.Basic multi-omics exploration and integration;Introduction to analysis of single cell functional genomics data (scATAC-seq). \n\n\n\nEntry requirements\n\n\n\nRequired for being able to follow the workshop and complete the computer exercises: \n\n\n\nBYOL\, bring your own laptop with R and RStudio installed;Basic knowledge in Linux;Basic programming experience\, preferably in R.\n\n\n\nDesirable \n\n\n\nExperience working on the SNIC center Uppmax or another HPC. We encourage participants to run the linked Uppmax tutorial before the workshop;Previous experience with NGS data analyses;Completing NBIS workshops “Introduction to Bioinformatics using NGS data” and “R Programming Foundations for Life Scientists” or equivalent.\n\n\n\nDue to limited capacity the workshop can accommodate maximum of 25 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. \n\n\n\nPlease note that NBIS training events do not provide any formal university credits. \n\n\n\nThe 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 course application\, whether the course is valid for formal credits or not.
URL:https://www.scilifelab.se/event/epigenomics-data-analysis-from-bulk-to-single-cell-online/
CATEGORIES:Course
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
LOCATION:
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