#@ RNAseq

/data/images/proton/DKlab/orsalia2/stringtie/edgeRtranscriptsExpr-wtVSko.withGID.csv.alt_spliced_in_GE_one_condition.csv
maxAnticorr maxAnticorrCond nAnticorr AvgAnticorr maxAntiIso gene geneName geneID transcriptID "logFC" "logCPM" "PValue" "FDR" "Ko01" "Ko02" "KO21" "KO22" "Ko61" "Ko62" "KOIFN1" "KOIFN2" "Ko1IL4" "Ko2IL4" "wt01" "wt02" "wt21" "wt22" "wt61" "wt62" "wtIFN1" "wtIFN2" "wt01IL4" "wt02IL4" geneName geneID transcriptID "logFC" "logCPM" "PValue" "FDR" "Ko01" "Ko02" "KO21" "KO22" "Ko61" "Ko62" "KOIFN1" "KOIFN2" "Ko1IL4" "Ko2IL4" "wt01" "wt02" "wt21" "wt22" "wt61" "wt62" "wtIFN1" "wtIFN2" "wt01IL4" "wt02IL4"
-0.587025 "Ko01" 1 -0.587025 "ENSMUST00000113124" "Mapkap1" "Mapkap1" "MSTRG.8671" "ENSMUST00000113126" 2.47344772850441 3.64049935693457 5.91865810729995e-05 0.0185880975252906 4.52608476625469 6.38595177162173 4.01589712761333 3.88796933810151 5.05627333794204 2.72955630132305 2.43658054402292 1.14414433185065 3.23535415502775 4.5723910526226 4.98955395323948 8.52135933250374 46.0396884029596 2.41959112070935 38.2918819641095 36.0329569447904 32.3333114890628 3.60673012822043 3.38925637018201 35.443156718093 "Mapkap1" "MSTRG.8671" "ENSMUST00000113124" -8.22136114054373 -2.35490624284661 0.000180689515359195 0.0325914950220026 0.807309237244669 0 1.54885639794787 0 0 0 0 0 1.16011585514358 0 0 0 0 0 0 0 0 0 0 0


/data/images/proton/DKlab/orsalia2/stringtie/edgeRtranscriptsExpr-2h.withGID.csv
geneName geneID transcriptID "logFC" "logCPM" "PValue" "FDR" "KO21" "KO22" "wt21" "wt22"
"Mapkap1" "MSTRG.8671" "ENSMUST00000113129" -3.5227264919426 -0.328464416198219 0.0889165502966957 0.909556974098782 0.352889489365311 2.50311305880351 0.246831002512889 0
FDR 0.9

#@ PolysomeSeq
reczko@max:/data/images/proton/DKlab/mr/Polysomes/reads/stringtie$ grep Mapkap1 *withGID.csv
#only 1 sig DE:
edgeRtranscripts-2h.withGID.csv:"Mapkap1" "MSTRG.11645" "ENSMUST00000113129" 9.8856905334804 6.85482810293792 1.78758865088255e-08 0.000429222379935037

grep ENSMUST00000113129 *withGID.csv
edgeRtranscripts-0h.withGID.csv:"Mapkap1" "MSTRG.11645" "ENSMUST00000113129" 0.665860521451064 5.1522726069845 0.716831548639814 1
edgeRtranscripts-2h.withGID.csv:"Mapkap1" "MSTRG.11645" "ENSMUST00000113129" 9.8856905334804 6.85482810293792 1.78758865088255e-08 0.000429222379935037
edgeRtranscripts-6h.withGID.csv:"Mapkap1" "MSTRG.11645" "ENSMUST00000113129" -1.71244132503212 5.36635871724606 0.326360155175612 1
edgeRtranscripts-IFN.withGID.csv:"Mapkap1" "MSTRG.11645" "ENSMUST00000113129" -0.465188559338896 6.27885610264897 0.781442651278488 1
edgeRtranscripts-IL4.withGID.csv:"Mapkap1" "MSTRG.11645" "ENSMUST00000113129" -0.541357947072496 5.79847237098478 0.593860723135926 1

#@ transcriptome-only
-1    58
0  95966
1     23
> > > > > > > > > >    [,1] 
-1    36
0  96002
1      9
> > > > > > > > > > > > > > > > >    [,1] 
-1    28
0  96008
1     11
> > > > > > > > > > > > > > > > >    [,1] 
-1    45
0  95995
1      7
> > > > > > > > > > > > > > > > >    [,1] 
-1    18
0  96001
1     28

reczko@max:/data/images/proton/DKlab/mr/Polysomes/reads/stringtie$ grep ENSMUST00000113129 *withGID.csv
edgeRtranscripts-0h.withGID.csv:"Mapkap1" "MSTRG.11628" "ENSMUST00000113129" 0.668030231455045 5.16392976664489 0.686873586085773 1
edgeRtranscripts-2h.withGID.csv:"Mapkap1" "MSTRG.11628" "ENSMUST00000113129" 9.90700958726807 6.89544959805351 1.53222109549677e-08 0.000294330479118356
edgeRtranscripts-6h.withGID.csv:"Mapkap1" "MSTRG.11628" "ENSMUST00000113129" -1.68702253366377 5.35885579114008 0.331862599720632 1
edgeRtranscripts-IFN.withGID.csv:"Mapkap1" "MSTRG.11628" "ENSMUST00000113129" -0.495976220101915 6.25893330855874 0.756758703120933 1
edgeRtranscripts-IL4.withGID.csv:"Mapkap1" "MSTRG.11628" "ENSMUST00000113129" -0.530104714231292 5.78096904291225 0.595282833130039 1