Question: Differential Expression of lncRNAs in Brain --- Can a database aid my search?
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gravatar for JourneyToAbyss
6 months ago by
JourneyToAbyss80 wrote:

I am searching for lncRNA expression differences within specific brain tissues (astrocytes vs neurons vs etc...) for humans. I have browsed numerous lncRNA databases (linked from https://en.wikipedia.org/wiki/List_of_long_non-coding_RNA_databases) and explored the ensembl regulatory build. That being said, I can''t find any comprehensive source that highlights that information.

Perhaps the only solution is to use publicly available RNA-seq data and perform the differential expression myself. But as I've never done that... and suspect others had this same question... I thought it would be prudent to post here.

Thus, I am hoping someone could either point me in the right direction or highlight what I should/shouldn't be doing. Perhaps there is a reason this information isn't readily available.

Thank you

ADD COMMENTlink modified 6 months ago by piyushjo140 • written 6 months ago by JourneyToAbyss80
1
gravatar for piyushjo
6 months ago by
piyushjo140
piyushjo140 wrote:

Hi JTA,

Nice to see another person looking for lncRNA in brain. I can share some resources I am aware of. http://www.brainspan.org/

http://www.cdtdb.neuroinf.jp/CDT/Top.jsp

Read these papers

http://www.jneurosci.org/content/38/10/2399

https://genome.cshlp.org/content/28/8/1097.full

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4657279/

The resources are very limited and you would have to do your own analysis and even for that you might not find a lot of raw data for human.

Hope it helps!

ADD COMMENTlink written 6 months ago by piyushjo140
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