how to determine genes expressed in NK cells using DE RNA-Seq data

Question

[MS]

hi,

I am searching for a tool that can determine genes expressed in NK cells.

I have a gene list as a result of RNA-Seq data DE analysis and I want to determine which of these genes are expressing in NK cells.

I tried ImmGen server but it accepts max. 200 genes.

thanks

[Ram]

Use tags to pick keywords, not write the entire question again. ImmGen is a valid tag. expressed and in are not.

[MS]

I tried to correct it, thank you

Answer 1

[ATpoint]

ImmGen has a download portal with normalized and (sometimes) raw counts: http://rstats.immgen.org/DataPage/

Just download what you need, e.g. the RNA-seq datasets, and then just filter out what you need, and be it with Excel. For cutoffs please see earlier threads on what can be considered an "expressed gene", e.g. cutoff for expressed genes in DESeq2 or simply consider a gene being expressed it the raw count is > 0.

[MS]

Thank you so much! I tried it u saved my day

[Ram]

A small educational note: if an answer was helpful, you should upvote it; if the answer resolved your question, you should mark it as accepted. You can accept more than one answer if they all work. If an answer was not really helpful or did not work, provide detailed feedback so others know not to use that answer.