Identify cell type from bulk RNA sequencing data
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6 weeks ago
minoo • 0

I have a data set with 60000 genes and 10 markers, which the head of the data looks like below:

>     df<-read.csv(text=
>     "genes, s1, s2, s3, s4, s5, s6, s7, s8, s9, s10
>     ENSG00000145416,  81.321, 5.1461, 8.7551, 3.6665, 6.821,  3.23,   1.08,   6.422,  2.92,   2.04
>     ENSG00000186205,  83.863, 2.6170, 1.9383, 1.4184, 2.007,  1.40,   1.59,   4.072,  2.89,   8.61
>     ENSG00000180096,  48.578, 4.9632, 1.4995, 1.6721, 1.297,  1.13,   1.67,   6.501,  1.36,   2.68
>     ENSG00000173077,  120.85, 6.5401, 2.3856, 2.3546, 1.919,  1.47,   3.38,   4.417,  2.78,   1.68
>     ENSG00000099785,  769.08, 5.4722, 1.0363, 1.3474, 1.635,  1.65,   7.42,   8.183,  2.47,   8.09
>     ENSG00000117791,  57.956, 1.1991, 4.0939, 1.0665, 1.516,  1.39,   0.00,
> 1.67, 1.297,  1.1",sep=",")


I don't know the exact type of experiment but according to the data it seems to be a bulk RNA seq data. I know the cell type of s2 to s10 markers, and I would like to know the cell type of s1 marker. What approach do you suggest to use to figure that out? With regard that these are from bone marrow.

sequencing type clustering r • 127 views