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twang15 / Long-read-RNA

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Meeting memo 2 #7

Open twang15 opened 2 years ago

twang15 commented 2 years ago

10/18/2021, Hagen, Tao, Michael

Thanks for the call today. A few follow ups (let me know if I am missing anything):

  1. miRNA sequences: https://www.mirbase.org/ftp.shtml
  2. miranda to compute alignments (+/- 25bp target 3'UTR editing site): https://bioweb.pasteur.fr/packages/pack@miRanda@3.3a
  3. one of our preprints: https://www.biorxiv.org/content/10.1101/2021.07.16.452690v1
  4. A recent survey of RNA editing in single neurons: https://rnajournal.cshlp.org/content/early/2021/09/17/rna.078804.121.full.pdf This paper is based on these data: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5951394/
  5. Next meeting: 8:30 am PST

Screen Shot 2021-10-24 at 8.55.32 PM.pdf

twang15 commented 2 years ago

10-28-2021, Hagen, Fereshteh, Tao

  1. Merge bam files according to well barcodes into 64 bam files (one per well)
  2. Kick off the run on v3 datasets