HCC1395_BL.tnseq_tumor_only.filtered_snpEff.genes.txt

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Filename: HCC1395_BL.tnseq_tumor_only.filtered_snpEff.genes.txt
Full Path: s3://natera-platform-sandbox/platform-users/rsrivas/pipeline_runs/somatic_cnv/bwcompat/somacnv_bwcompat_20260608-203934/variant_calling/chip_variants/HCC1395_BL/somatic_normal/HCC1395_BL.tnseq_tumor_only.filtered_snpEff.genes.txt
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Workflow Run: somacnv-bwcompat-20260608-203934
Published: Jun 08, 2026 1:45 PM
Content

# The following table is formatted as tab separated values. 
#GeneName	GeneId	TranscriptId	BioType	variants_impact_HIGH	variants_impact_LOW	variants_impact_MODERATE	variants_impact_MODIFIER	variants_effect_3_prime_UTR_variant	variants_effect_5_prime_UTR_premature_start_codon_gain_variant	variants_effect_5_prime_UTR_variant	variants_effect_conservative_inframe_insertion	variants_effect_disruptive_inframe_deletion	variants_effect_disruptive_inframe_insertion	variants_effect_downstream_gene_variant	variants_effect_frameshift_variant	variants_effect_intron_variant	variants_effect_missense_variant	variants_effect_non_coding_transcript_exon_variant	variants_effect_splice_acceptor_variant	variants_effect_splice_region_variant	variants_effect_synonymous_variant	variants_effect_upstream_gene_variant
ADARB1	ENSG00000197381	ENST00000360697	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
AIRE	ENSG00000160224	ENST00000291582	protein_coding	0	0	0	3	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0
APP	ENSG00000142192	ENST00000346798	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
BAGE2	ENSG00000187172	ENST00000496773	transcribed_unprocessed_pseudogene	1	1	0	7	0	0	0	0	0	0	0	0	2	0	6	1	1	0	1
BRWD1	ENSG00000185658	ENST00000333229	protein_coding	0	0	1	1	0	0	0	0	0	0	0	0	1	1	0	0	0	0	0
BRWD1-IT1	ENSG00000237373	ENST00000435608		0	0	0	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
BTG3	ENSG00000154640	ENST00000339775	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
C21orf58	ENSG00000160298	ENST00000291691	protein_coding	0	0	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
CFAP298	ENSG00000159079	ENST00000290155	protein_coding	0	0	0	5	3	0	0	0	0	0	0	0	2	0	0	0	0	0	0
CFAP298-TCP10L	ENSG00000265590	ENST00000673807	protein_coding	0	0	0	5	0	0	0	0	0	0	0	0	5	0	0	0	0	0	0
CLIC6	ENSG00000159212	ENST00000360731	protein_coding	0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
COL18A1	ENSG00000182871	ENST00000359759	protein_coding	0	0	1	7	0	0	0	0	1	0	0	0	7	0	0	0	0	0	0
COL18A1-AS2	ENSG00000224574	ENST00000446475		0	0	0	5	0	0	0	0	0	0	5	0	0	0	0	0	0	0	0
COL6A1	ENSG00000142156	ENST00000361866	protein_coding	0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
COL6A2	ENSG00000142173	ENST00000300527	protein_coding	0	1	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0
CRYZL1	ENSG00000205758	ENST00000381554	protein_coding	0	0	0	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
DIP2A	ENSG00000160305	ENST00000651436	protein_coding	0	0	0	3	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0
DNMT3L	ENSG00000142182	ENST00000270172	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
DONSON	ENSG00000159147	ENST00000303071	protein_coding	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
DOP1B	ENSG00000142197	ENST00000399151	protein_coding	0	0	1	4	0	0	0	0	0	0	0	0	4	1	0	0	0	0	0
DSCAM	ENSG00000171587	ENST00000400454	protein_coding	0	0	1	1	0	0	0	0	0	0	0	0	1	1	0	0	0	0	0
ENSG00000224790	ENSG00000224790	ENST00000653177		0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1
ENSG00000228137	ENSG00000228137	ENST00000444966		0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1
ENSG00000228318	ENSG00000228318	ENST00000411427		0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
ENSG00000229047	ENSG00000229047	ENST00000446301		0	0	0	2	0	0	0	0	0	0	2	0	0	0	0	0	0	0	0
ENSG00000231201	ENSG00000231201	ENST00000436429		0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1
ENSG00000235609	ENSG00000235609	ENST00000432230		0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
ENSG00000249209	ENSG00000249209	ENST00000429238	protein_coding	0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
ENSG00000272657	ENSG00000272657	ENST00000362077		0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
ENSG00000273199	ENSG00000273199	ENST00000608391		0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0
ENSG00000273796	ENSG00000273796	ENST00000617004		0	0	0	5	0	0	0	0	0	0	0	0	0	0	0	0	0	0	5
ENSG00000276612	ENSG00000276612	ENST00000623476	protein_coding	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
ENSG00000286153	ENSG00000286153	ENST00000651798		0	0	0	3	0	0	0	0	0	0	2	0	0	0	0	0	0	0	1
ERG	ENSG00000157554	ENST00000398919	protein_coding	0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
ETS2	ENSG00000157557	ENST00000667466	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
EVA1C	ENSG00000166979	ENST00000300255	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
FAM3B	ENSG00000183844	ENST00000398652	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
FTCD	ENSG00000160282	ENST00000397748	protein_coding	0	0	0	3	0	0	0	0	0	0	1	0	2	0	0	0	0	0	0
FTCD-AS1	ENSG00000237338	ENST00000446649		0	0	0	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
GABPA	ENSG00000154727	ENST00000354828	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
GART	ENSG00000159131	ENST00000381815	protein_coding	0	0	0	5	0	0	0	0	0	0	0	0	4	0	0	0	0	0	1
GATD3B	ENSG00000280071	ENST00000620528	protein_coding	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
GET1-SH3BGR	ENSG00000285815	ENST00000647779	protein_coding	0	0	1	1	0	0	0	0	0	1	0	0	1	0	0	0	0	0	0
GRIK1	ENSG00000171189	ENST00000327783	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
HLCS	ENSG00000159267	ENST00000674895	protein_coding	0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
HMGN1	ENSG00000205581	ENST00000380747	protein_coding	0	0	0	6	0	0	0	0	0	0	0	0	6	0	0	0	0	0	0
HUNK	ENSG00000142149	ENST00000270112	protein_coding	0	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0
ICOSLG	ENSG00000160223	ENST00000400379	protein_coding	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
ITSN1	ENSG00000205726	ENST00000381318	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
KRTAP10-1	ENSG00000215455	ENST00000400375	protein_coding	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
KRTAP10-2	ENSG00000205445	ENST00000391621	protein_coding	0	1	1	1	0	0	1	0	0	0	0	0	0	1	0	0	0	1	0
KRTAP10-3	ENSG00000212935	ENST00000391620	protein_coding	0	2	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	2	0
KRTAP10-4	ENSG00000215454	ENST00000400374	protein_coding	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
KRTAP10-6	ENSG00000188155	ENST00000400368	protein_coding	1	2	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	2	0
KRTAP10-8	ENSG00000187766	ENST00000334662	protein_coding	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0
KRTAP12-2	ENSG00000221864	ENST00000360770	protein_coding	0	0	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0
KRTAP12-3	ENSG00000205439	ENST00000397907	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1
KRTAP12-4	ENSG00000212933	ENST00000391618	protein_coding	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0
KRTAP22-1	ENSG00000186924	ENST00000334680	protein_coding	0	0	0	2	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0
KRTAP6-2	ENSG00000186930	ENST00000334897	protein_coding	0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2
LINC00334	ENSG00000182586	ENST00000670960		0	0	0	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
LINC01426	ENSG00000234380	ENST00000420877		0	0	0	4	0	0	0	0	0	0	4	0	0	0	0	0	0	0	0
LSS	ENSG00000160285	ENST00000356396	protein_coding	0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
LTN1	ENSG00000198862	ENST00000614971	protein_coding	0	0	0	6	0	0	0	0	0	0	0	0	6	0	0	0	0	0	0
MCM3AP	ENSG00000160294	ENST00000291688	protein_coding	0	1	0	7	0	0	0	0	0	0	0	0	1	0	0	0	1	0	7
MCM3AP-AS1	ENSG00000215424	ENST00000664725		0	0	0	3	0	0	0	0	0	0	0	0	0	0	1	0	0	0	2
MIR6501	ENSG00000284448	ENST00000290239	miRNA	0	0	0	1	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0
MORC3	ENSG00000159256	ENST00000400485	protein_coding	0	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0
MRPL39	ENSG00000154719	ENST00000307301	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
MRPS6	ENSG00000243927	ENST00000399312	protein_coding	0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
MX1	ENSG00000157601	ENST00000398598	protein_coding	0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
NCAM2	ENSG00000154654	ENST00000400546	protein_coding	0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
NRIP1	ENSG00000180530	ENST00000318948	protein_coding	0	0	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0
PAXBP1	ENSG00000159086	ENST00000331923	protein_coding	0	1	0	1	0	0	0	0	0	0	0	0	2	0	0	0	1	0	0
PAXBP1-AS1	ENSG00000238197	ENST00000655758		0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
PDXK	ENSG00000160209	ENST00000291565	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
PFKL	ENSG00000141959	ENST00000349048	protein_coding	0	0	0	3	0	0	0	0	0	0	0	0	2	0	0	0	0	0	1
PKNOX1	ENSG00000160199	ENST00000291547	protein_coding	0	1	0	1	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0
POFUT2	ENSG00000186866	ENST00000349485	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
PRMT2	ENSG00000160310	ENST00000355680	protein_coding	0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
RBM11	ENSG00000185272	ENST00000400577	protein_coding	0	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0
RRP1B	ENSG00000160208	ENST00000340648	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
RUNX1	ENSG00000159216	ENST00000300305	protein_coding	0	0	0	13	6	0	4	0	0	0	0	0	3	0	0	0	0	0	0
S100B	ENSG00000160307	ENST00000367071	protein_coding	0	0	0	2	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0
SCAF4	ENSG00000156304	ENST00000286835	protein_coding	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0
SH3BGR	ENSG00000185437	ENST00000333634	protein_coding	0	0	1	1	0	0	0	0	0	1	0	0	1	0	0	0	0	0	0
SLC19A1	ENSG00000173638	ENST00000311124	protein_coding	0	0	0	5	0	0	0	0	0	0	5	0	0	0	0	0	0	0	0
SLC5A3	ENSG00000198743	ENST00000381151	protein_coding	0	0	0	2	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0
SON	ENSG00000159140	ENST00000356577	protein_coding	0	0	0	2	0	0	0	0	0	0	0	0	1	0	0	0	0	0	1
SRSF9P1	ENSG00000214867	ENST00000399149	processed_pseudogene	0	0	0	4	0	0	0	0	0	0	4	0	0	0	0	0	0	0	0
SYNJ1	ENSG00000159082	ENST00000433931	protein_coding	0	0	1	2	0	0	0	1	0	0	0	0	2	0	0	0	0	0	0
TIAM1	ENSG00000156299	ENST00000286827	protein_coding	0	0	1	3	0	0	0	0	0	0	0	0	3	1	0	0	0	0	0
TIMM9P2	ENSG00000232608	ENST00000419324	processed_pseudogene	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1
TMPRSS15	ENSG00000154646	ENST00000284885	protein_coding	0	0	0	7	0	0	0	0	0	0	0	0	7	0	0	0	0	0	0
TMPRSS2	ENSG00000184012	ENST00000679263	protein_coding	0	0	0	53	0	0	0	0	0	0	0	0	53	0	0	0	0	0	0
TRAPPC10	ENSG00000160218	ENST00000291574	protein_coding	0	0	0	3	0	0	0	0	0	0	0	0	3	0	0	0	0	0	0
TRPM2	ENSG00000142185	ENST00000397932	protein_coding	0	0	0	2	0	0	0	0	0	0	0	0	2	0	0	0	0	0	0
TSPEAR	ENSG00000175894	ENST00000323084	protein_coding	0	0	0	17	0	0	0	0	0	0	0	0	17	0	0	0	0	0	0
TTC3	ENSG00000182670	ENST00000354749	protein_coding	0	0	0	7	0	0	0	0	0	0	0	0	7	0	0	0	0	0	0
TTC3-AS1	ENSG00000228677	ENST00000424733		0	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	0	0	2
UBE2G2	ENSG00000184787	ENST00000345496	protein_coding	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0
UMODL1	ENSG00000177398	ENST00000408989	protein_coding	0	0	1	1	0	0	0	0	0	0	0	0	1	1	0	0	0	0	0
UMODL1-AS1	ENSG00000184385	ENST00000329015		0	0	0	2	0	0	0	0	0	0	1	0	0	0	0	0	0	0	1
URB1	ENSG00000142207	ENST00000382751	protein_coding	0	0	2	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0
USP25	ENSG00000155313	ENST00000400183	protein_coding	0	0	1	1	0	0	0	0	0	0	0	0	1	1	0	0	0	0	0
YBEY	ENSG00000182362	ENST00000329319	protein_coding	0	0	0	8	0	0	0	0	0	0	1	0	7	0	0	0	0	0	0
Y_RNA	ENSG00000252915	ENST00000517106	misc_RNA	0	0	0	6	0	0	0	0	0	0	6	0	0	0	0	0	0	0	0