Schedule

Monday (23 November 2020)

DNA methylation with Illumina 450K arrays and Bisulfite-seq

09.15 - 09.30 Welcome (online session) (Olga, Agata)

09.30 - 09.45 Introduction to methylation (online session) (Vincent)

09.45 - 10.15 Computer exercises set-up (online support)

10.15 - 10.30 Methylation Exercises Overview I: Array workflow (online session) (Vincent)

10.30 - 12.00 Exercises (online support)

12.00 - 13.00 lunch (offline)

13.00 - 13.30 Exercises (online support)

13.30 - 15.00 Methylation methods & technologies (online session) (Jessica)

15.00 - 15.15 Methylation Exercises Overview II: Methylation Sequencing (online session) (Vincent)

15.15 - 17.00 Exercises (online support)

17.00 - 17.30 Test yourself (offline)

Tuesday (24 November 2020)

ChIP-seq and ATAC-seq data processing and analysis principles

09.15 - 10.00 Recap of the previous day (online group session)

10.00 - 11.30 Introduction to ChIPseq & ATACseq (Agata) (online session)

11.30 - 13.00 lunch (offline)

13.00 - 13.30 Calling broad peaks, differential analysis , Motif analysis (online session) (Agata, Olga, Jakub)

13.30 - 15.30 Exercises (online support)

15.30 - 17.00 Exercises (offline)

17.00 - 17.30 Test yourself (offline)

Wednesday (25 November 2020)

New methods and quantitative ChIP-seq

09.15 - 10.30 Recap of the previous day (online group session)

10.30 - 11.30 Quantitative ChIP-seq methods (online session) (Simon)

11.30 - 13.00 lunch (offline)

13.00 - 14.30 Exercises (online support)

14.30 - 15.00 ChIP-seq alternatives - ChIC, CUT&RUN, CUT&TAG (online session) (Simon)

15.00 - 16.00 Exercises (online support)

16.00 - 17.00 Exercises (offline)

17.00 - 17.30 Test yourself (offline)

Thursday (26 November 2020)

Nf-core pipelines: Methylseq, Chipseq, Atacseq

09.15 - 10.00 Recap of the previous day (online group session)

10:00 - 10:40 Introduction to Nextflow (online session) (Phil)

10:40 - 11.30 Exercises (online support)

11.30 - 13.00 lunch (offline)

13:00 - 13:45 Introduction to the ChIP-seq and ATAC-seq pipelines (online session) (Harshil)

13.45 - 15.30 Exercises (online support)

15.30 - 17.00 Exercises (offline)

17.00 - 17.30 Test yourself (offline)

Friday (27 November 2020)

Integrative and single cell omics

09.15 - 10.00 Recap of the previous day (online group session)

10.00 - 10.45 Single cell methods (Jakub) (online session)

10.45 - 11.00 Break

11.00 - 11.45 Data integration (Jakub) (online session)

11.45 - 13.00 lunch (offline)

13.00 - 13.05 Introduction to exercises (online session)

13.05 - 14.30 Exercises (online support)

14.30 - 15.00 Test yourself (offline)

15.00 - 16.00 Course wrap-up (online session)

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