I am looking the secretome profile and the membrane receptor profile for a given cell type.
In my specific case, this should be the secretome and outer membrane receptor profiles of dorsal root ganglion.
What I've done in the past is taken proteomics datasets or RNAseq datasets and used this as a reference cell surface proteome or secretome.
I wasn't sure what the best way to filter secreted proteins or membrane receptors were, so I used the Human Protein Atlas and this turned out to be a big headache. A possible alternative method might be to use DAVID, but there must be a more efficient method via the command line.
My questions are these:
- Is there a "consensus" database containing protein expression profiles for different tissue types in human?
- If not, what is the best way to filter out the secreted and transmembrane proteins by gene symbol?