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Regenerate somatic and fusion panel data
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scwatts committed Mar 7, 2024
1 parent a54317e commit 7081f38
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Showing 11 changed files with 450 additions and 4,638 deletions.
316 changes: 32 additions & 284 deletions fusion_panel/1_panel_data/output/fusion_database.tsv

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316 changes: 32 additions & 284 deletions fusion_panel/1_panel_data/output/hmftools/known_fusion_data.38.csv

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158 changes: 16 additions & 142 deletions somatic_panel/4_panel_data/output/hmftools/DriverGenePanel.38.tsv

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3,942 changes: 335 additions & 3,607 deletions somatic_panel/4_panel_data/output/umccr_cancer_genes.cds.bed

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158 changes: 16 additions & 142 deletions somatic_panel/4_panel_data/output/umccr_cancer_genes.genes.bed

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158 changes: 16 additions & 142 deletions somatic_panel/4_panel_data/output/umccr_cancer_genes.latest.genes

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Expand Up @@ -4,11 +4,8 @@ ACVR1B
ACVR2A
AJUBA
ALDH2
ALOX12B
AMER1
ANKRD11
APC
APOBEC3B
ARHGAP26
ARHGAP35
ARHGEF12
Expand All @@ -27,7 +24,6 @@ B2M
BAP1
BARD1
BAX
BBC3
BCL10
BCL11B
BCL2L11
Expand All @@ -48,11 +44,9 @@ CBFA2T3
CBFB
CBL
CCDC6
CCN6
CCNB1IP1
CDC73
CDH1
CDH10
CDK12
CDKN1A
CDKN1B
Expand All @@ -63,7 +57,6 @@ CDKN2C
CDX2
CEBPA
CHD1
CHD2
CHEK1
CHEK2
CIC
Expand All @@ -87,10 +80,8 @@ DDX10
DDX3X
DDX41
DICER1
DIRAS3
DIS3
DNMT3A
DNMT3B
DUSP22
DUSP4
EED
Expand Down Expand Up @@ -124,8 +115,6 @@ FANCM
FAS
FAT1
FBXW7
FEN1
FGF14
FH
FHIT
FLCN
Expand All @@ -140,7 +129,6 @@ GATA3
GATA4
GNA13
GPC3
GPS2
GRIN2A
H1-3
H1-5
Expand All @@ -152,10 +140,7 @@ HOXA9
HOXB13
ID3
IFNGR1
IGF2R
IKZF3
INHA
INHBA
INPP4B
IRF2
IRF8
Expand All @@ -167,21 +152,18 @@ KDM6A
KEAP1
KLF4
KLF6
KLHL6
KMT2A
KMT2B
KMT2C
KMT2D
LATS1
LATS2
LIFR
LRIG3
LRP1B
LZTR1
MAD2L2
MAP2K4
MAP3K1
MAP3K4
MAX
MBD4
MED12
Expand All @@ -190,7 +172,6 @@ MGA
MITF
MLF1
MLH1
MLH3
MRE11
MRTFA
MSH2
Expand All @@ -215,7 +196,6 @@ NKX3-1
NOTCH1
NOTCH2
NOTCH3
NOTCH4
NPM1
NSD1
NTHL1
Expand All @@ -224,7 +204,6 @@ PALB2
PARP1
PATZ1
PAX5
PAX6
PBRM1
PCM1
PDS5B
Expand All @@ -233,29 +212,22 @@ PHOX2B
PIGA
PIK3R1
PIK3R2
PIK3R3
PMAIP1
PML
PMS1
PMS2
POLD1
POLE
POLQ
POT1
PPP2R1A
PPP2R2A
PPP6C
PRDM1
PRF1
PRKDC
PRKN
PTCH1
PTEN
PTPN12
PTPN13
PTPRD
PTPRK
PTPRS
PTPRT
QKI
RAD21
Expand All @@ -271,14 +243,12 @@ RBM10
RBM15
RECQL
RECQL4
REST
RFWD3
RNF43
RPL5
RSPO2
RTEL1
RUNX1
RYBP
SAMHD1
SAV1
SBDS
SDHA
Expand All @@ -290,28 +260,26 @@ SETD2
SETDB1
SFPQ
SH2B3
SH2D1A
SHQ1
SLC34A2
SLFN11
SLX4
SMAD2
SMAD3
SMAD4
SMARCA1
SMARCA2
SMARCA4
SMARCB1
SMARCE1
SMC1A
SMC3
SOCS1
SOX17
SOX4
SOX9
SPEN
SPI1
SPOP
SPRED1
SPRTN
SRGAP3
STAG1
STAG2
Expand All @@ -324,7 +292,6 @@ TCF7L2
TENT5C
TET1
TET2
TFAP2A
TGFBR1
TGFBR2
TMEM127
Expand All @@ -337,7 +304,6 @@ TPM3
TRAF3
TRIM24
TRIM33
TRIP13
TSC1
TSC2
USP9X
Expand Down

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