Cell communacations analysis. I only have the proteome of one type of cell
Good day, everybody!
I am just starting in bioinformatics and I would like to do a cell to cell communication analysis. I know there are various tools for that purpose such as Cellchat, Cellphonedb, Nichenet, etcetera. However, I see that every one of those commonly has ScRNAseq data as input.
Right now I only have a proteome of a cell culture with only one cell type. Would it be aproppiate to input the differential expression of such data set to a cell to cell communication analysis tool? If so... Which one and Why would that be the case?
Thank you. Best wishes.
• 957 views
•
link
updated
by
QX •
•
written
by
David Arturo •
•
written
by
David Arturo •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Combining scRNA-seq datasets that have been processed differently
written by S •
-
Changing Cellchat labels or group.by function
written by odi •
-
cellchat analysis from from a Scanpy h5ad file
written by cgp09741 •
-
labelling the clusters from the CD4 T cell scRNAseq data
written by Sara
-
How to choose the number of cluster in single cell multiome (RNA & ATAC)
written by Chris •
-
Should we assume UMI-based scRNAseq data is not compositional?
written by cwwong13 •
-
Nichenet network
written by Anst •
-
Which are the best Cell - Cell communication packages for single cell RNASeq timeseries data?
written by AB
-
One BioSample per single cell ?
written by Charles Plessy
-
GO enrichment analysis using non model organism
written by dago
If you want to infer communication then you need at least one sender and one receiver. How would that go with just one single bulk sample?
Hi ATpoint, I wonder if it makes any sense to perform kind of autocrine signaling analysis; that splitting the one-cell-type dataset randomly then performing nichenet?