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Published 20 hours ago • verified publisher icon rnabioco

Identify useful data sets

Open jayhesselberth opened this issue 5 years ago • 4 comments

  • Probably don't want to bundle AVID-seq data until it's published.
  • LIBRA-seq?
  • Other large TCR or BCR sequencing data sets?

jayhesselberth avatar Sep 03 '20 11:09 jayhesselberth

LIBRA-seq HIV patient data, thought it sounds like it's not in 10x post processing format: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE140795

PeyersPatch BCR data, only 4 samples but in 10x format it appears: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE140795

scotterdooo avatar Sep 04 '20 19:09 scotterdooo

@scotterdooo you added the same link twice above. How did you find the HIV patient data? the LIBRA-seq paper?

jayhesselberth avatar Sep 09 '20 22:09 jayhesselberth

Thymic development TCR: https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-8581/samples/?s_page=1&s_pagesize=500

COVID19 TCR/BCR: https://www.nature.com/articles/s41590-020-0762-x#data-availability May be hard to get data, deposited in genome sequence archive in China and listed as controlled access

sheridar avatar Oct 22 '20 16:10 sheridar

A large scRNA-seq/VDJ COVID19 study: https://www.sciencedirect.com/science/article/pii/S0092867420314446?via%3Dihub

sheridar avatar Nov 11 '20 17:11 sheridar