Will try to use DAVID to determine gene set associated with methylation by taking the v8 ref hits
For reference taking Protein hit sheet
sorting by evalue and ....
overall more ref_seq protein
only some refseq in DAVID?
restarting with swiss-prot
sorting to get sp first
still only going to get about 14k (similar to just going with refseq
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lets repeat with refseq has top
interesting
OK
Lets Get some SP IDs
plain old BLAST- less -05 can get 12600
will use this file...
21k have SPIDs
as for Meth library
68k references had less than 10 coverage
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finally cooking
pretty stuff
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FOLD Values
Fold Values
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trying to get SLIM values to compare with Gavery chart
Specifically, genes predicted to be hyper-methylated are associated with housekeeping functions and those predicted to be hypo-methylated are associated with general immune functions.
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Need to get accurate total for reference
using the exact 20k list used for initial David analysis above
AHHHH!
Maybe forgot to get rid of duplicates? maybe, maybe do not need too though.
