kinase name and gene symbol mapping

[reimand0]

I added the file curated_kinase_IDs.txt to dropbox/ALL_PTM_SITES. You should be able to map some unidentified kinases to their symbols. Let me know how many unmapped kinases remain after converting via this map.

[krassowski]

We have about 25 kinases without associated proteins:

[<Kinase MAP3K14 belonging to <KinaseGroup MAP3K8, with 2 kinases> group>,
 <Kinase AURORA B belonging to None group>,
 <Kinase PRKCT belonging to None group>,
 <Kinase PRKDC belonging to <KinaseGroup ATM, with 6 kinases> group>,
 <Kinase CAMKA belonging to None group>,
 <Kinase CSNK2B belonging to None group>,
 <Kinase AURORA A belonging to None group>,
 <Kinase PRK4 belonging to None group>,
 <Kinase BCR/ABL belonging to None group>,
 <Kinase EG3 KINASE belonging to None group>,
 <Kinase PDKC belonging to None group>,
 <Kinase NPM/ALK belonging to None group>,
 <Kinase TITIN KINASE belonging to None group>,
 <Kinase CCDPK belonging to None group>,
 <Kinase PRKY belonging to <KinaseGroup PKA, with 5 kinases> group>,
 <Kinase STK19 belonging to <KinaseGroup STK19, with 1 kinases> group>,
 <Kinase NIM1 belonging to <KinaseGroup PRKAA1, with 20 kinases> group>,
 <Kinase  belonging to <KinaseGroup OXSR1, with 31 kinases> group>,
 <Kinase SGK196 belonging to <KinaseGroup RNASEL, with 3 kinases> group>,
 <Kinase WEE1B belonging to <KinaseGroup WEE1, with 3 kinases> group>,
 <Kinase YSK4 belonging to <KinaseGroup MAP3K5, with 8 kinases> group>,
 <Kinase RYK belonging to <KinaseGroup RYK, with 1 kinases> group>,
 <Kinase MLK4 belonging to <KinaseGroup FPGT-TNNI3K, with 10 kinases> group>,
 <Kinase FLJ25006 belonging to <KinaseGroup FLJ25006, with 1 kinases> group>,
 <Kinase C9ORF96 belonging to <KinaseGroup C9ORF96, with 1 kinases> group>]

And I start to think that's not the problem with the data but with the import workflow.

[reimand0]

Aurora A and Aurora B should be AURKA and AURKB, respectively.
TITIN KINASE is TTN

probably there are others that we can clear up

On Thu, Nov 10, 2016 at 5:45 PM krassowski [email protected] wrote:

Before we had 25 kinases without associated proteins:

[<Kinase MAP3K14 belonging to <KinaseGroup MAP3K8, with 2 kinases> group>,
,
,
<Kinase PRKDC belonging to <KinaseGroup ATM, with 6 kinases> group>,
,
,
,
,
<Kinase BCR/ABL belonging to None group>,
,
,
<Kinase NPM/ALK belonging to None group>,
,
,
<Kinase PRKY belonging to <KinaseGroup PKA, with 5 kinases> group>,
<Kinase STK19 belonging to <KinaseGroup STK19, with 1 kinases> group>,
<Kinase NIM1 belonging to <KinaseGroup PRKAA1, with 20 kinases> group>,
<Kinase belonging to <KinaseGroup OXSR1, with 31 kinases> group>,
<Kinase SGK196 belonging to <KinaseGroup RNASEL, with 3 kinases> group>,
<Kinase WEE1B belonging to <KinaseGroup WEE1, with 3 kinases> group>,
<Kinase YSK4 belonging to <KinaseGroup MAP3K5, with 8 kinases> group>,
<Kinase RYK belonging to <KinaseGroup RYK, with 1 kinases> group>,
<Kinase MLK4 belonging to <KinaseGroup FPGT-TNNI3K, with 10 kinases> group>,
<Kinase FLJ25006 belonging to <KinaseGroup FLJ25006, with 1 kinases> group>,
<Kinase C9ORF96 belonging to <KinaseGroup C9ORF96, with 1 kinases> group>]

and after it's only 20:

[,
,
,
,
,
<Kinase BCR/ABL belonging to None group>,
,
,
<Kinase NPM/ALK belonging to None group>,
,
,
<Kinase PRKY belonging to <KinaseGroup PKA, with 5 kinases> group>,
<Kinase NIM1 belonging to <KinaseGroup PRKAA1, with 20 kinases> group>,
<Kinase belonging to <KinaseGroup OXSR1, with 31 kinases> group>,
<Kinase SGK196 belonging to <KinaseGroup RNASEL, with 3 kinases> group>,
<Kinase WEE1B belonging to <KinaseGroup WEE1, with 3 kinases> group>,
<Kinase YSK4 belonging to <KinaseGroup MAP3K5, with 8 kinases> group>,
<Kinase MLK4 belonging to <KinaseGroup FPGT-TNNI3K, with 10 kinases> group>,
<Kinase FLJ25006 belonging to <KinaseGroup FLJ25006, with 1 kinases> group>,
<Kinase C9ORF96 belonging to <KinaseGroup C9ORF96, with 1 kinases> group>]

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