3
$\begingroup$

I want to use the single-cell data from the following expression profiling which concerns the RNA-seq of metastatic melanoma: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE72056

The data was also analyzed here, https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4944528/

However I cannot find the mapping between patient and single-cell samples anywhere, neither in the paper nor in the supplementary materials. Anybody has an experience with this data?

Note that in the Supp1 (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4944528/bin/NIHMS791837-supplement-Supp1.doc) from the paper, at Table S1 (almost at the end of the file) that represents the mapping between tumor and patient, which is a one-to-one mapping. But no mapping between samples and tumors found.

$\endgroup$
4
  • $\begingroup$ No answer yet?! $\endgroup$
    – hadi
    Commented Aug 27, 2019 at 13:29
  • $\begingroup$ If there is no answer, it is likely because no one has found an answer. Clearly you have had some trouble with this, perhaps it is a difficult question to answer. $\endgroup$
    – d_kennetz
    Commented Aug 27, 2019 at 19:51
  • 1
    $\begingroup$ Hey i briefly checked the publication. It is really hard to make a connection between the sequenced sample names and actual sample name. What I usually do is to write to the authors directly.. $\endgroup$
    – StupidWolf
    Commented Aug 29, 2019 at 12:53
  • $\begingroup$ OK Thanks. I will go for it. $\endgroup$
    – hadi
    Commented Aug 30, 2019 at 13:03

0

Your Answer

By clicking “Post Your Answer”, you agree to our terms of service and acknowledge you have read our privacy policy.

Browse other questions tagged or ask your own question.