Scout: "Symbol mis-match" when uploading new gene panel to Scout

[keyvanelhami]

When uploading the attached csv-file to Scout, I get below error message. I believe the db needs to be updated?

##panel_id=Lymfoid_genepanel_v1.0   
##institute=cust087 
##version=1.0   
##date=2020-09-24   
##display_name=Lymfoid genepanel v1.0   
#hgnc_id    hgnc_symbol
795 ATM
914 B2M
591 BIRC3
1097    BRAF
1133    BTK
16393   CARD11
1698    CD79A
1699    CD79B
7067    CIITA
2348    CREBBP
2561    CXCR4
3239    EGR2
3527    EZH2
4381    GNA13
5362    ID3
5383    IDH2
6193    JAK3
6347    KLF2
7562    MYD88
7799    NFKBIE
7881    NOTCH1
7882    NOTCH2
9065    PLCG1
9066    PLCG2
17284   POT1
667 RHOA
10388   RPS15
19902   RRAGC
10768   SF3B1
10769   SF3B1
19383   SOCS1
11364   STAT3
11367   STAT5B
11633   TCF3
11640   TCF3
25941   TET2
11896   TNFAIP3
11912   TNFRSF14
11998   TP53
12033   TRAF3
12825   XPO1
6840    MAP2K1

[northwestwitch]

Hi!
It's probably because both genes are duplicated in your list, with different hgnc ids. You should probably check which ID is official at the moment and go for it.

[keyvanelhami]

Thanks Chiara. I will check the customer and try to re-upload the gene-list

[northwestwitch]

From ensembl:
http://grch37.ensembl.org/Homo_sapiens/Gene/Summary?g=ENSG00000071564;r=19:1609291-1652604

http://grch37.ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=ENSG00000115524;r=2:198254508-198299815

[keyvanelhami]

Solved!

[dnil]

Perfect! genenames.org is also your friend in these situations!