Hi experts,
I am curious if there is a tool or database that can be use in the RNA-seq analysis pipeline that can filter the results of gene expression of my tissue samples into a specific cell type? I am not using single-cell RNA-seq but the normal RNA-seq of tissue sample, particularly the brain.
Thanks in advance!
Edward
Hello Edward
I have not seen such a filter and I cannot not think of a programming logic to do it. You may find and validate some tissue specific transcripts by lit review.
Hi Ali. Thanks. I'm just wondering if brain samples cannot be separated by flow techniques then they have a mixture of different cell types. If there is a database that already classified functions of different cell types then there it could help researchers to perform RNA-seq analyses from complex mixtures that doesn’t have the capacity to do Flow Cytometry or single-cell isolation.
Not directly let your database on transcriptome database into a specific cell type
but BioTuring Cell Search can search for similar populations in public single-cell data sets and give back to you a "cell type" suggestion.
https://blog.bioturing.com/2020/01/15/bioturing-cell-search-a-new-tool-to-search-for-similar-populations-in-public-single-cell-data-sets/
https://bioturing.com/
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