Squamous Cell Carcinoma — Genomics

Squamous Cell Carcinoma — Genomics · CancerIndex

Genomics

Gene alteration frequencies by cohort

26 cohorts mapped to this entity or its descendants. Each frequency is affected / profiled within one cohort; cohorts are shown separately because case selection, sequencing depth and definitions differ. By default the cohort with the most cases profiled is shown.

Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma (TCGA, Firehose Legacy) cesc_tcgaTCGA

194 cases with simple somatic mutation data · 310 cases total · 2026-01-05 · mapped to Cervical Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TTN

Cohorts mapped to a descendant (e.g. a subtype) are included because their cases belong to this entity by definition; the mapping and its match type are shown per cohort.

Cervical Squamous Cell Carcinoma (TCGA GDC, 2025) cesc_tcga_gdcTCGA GDC

289 cases with simple somatic mutation data · 309 cases total · 2026-01-13 · mapped to Cervical Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TTN	Ssm	87	289	30.1%	cbioportal
2	PIK3CA	Ssm	81	289	28%	cbioportal
3	KMT2C	Ssm	54	289	18.7%	cbioportal
4	MUC16	Ssm	49	289	17%	cbioportal
5	KMT2D	Ssm	39	289	13.5%	cbioportal
6	FLG	Ssm	37	289	12.8%	cbioportal
7	EP300	Ssm	36	289	12.5%	cbioportal
9	SYNE1	Ssm	35	289	12.1%	cbioportal
8	DMD	Ssm	35	289	12.1%	cbioportal
10	FBXW7	Ssm	34	289	11.8%	cbioportal
11	LRP1B	Ssm	33	289	11.4%	cbioportal
12	RYR2	Ssm	32	289	11.1%	cbioportal
13	DST	Ssm	31	289	10.7%	cbioportal
14	ADGRV1	Ssm	29	289	10%	cbioportal
15	USH2A	Ssm	29	289	10%	cbioportal
16	HUWE1	Ssm	28	289	9.7%	cbioportal
17	MUC17	Ssm	28	289	9.7%	cbioportal
20	NEB	Ssm	24	289	8.3%	cbioportal
18	LRP2	Ssm	24	289	8.3%	cbioportal
21	SYNE2	Ssm	24	289	8.3%	cbioportal
19	NAV3	Ssm	24	289	8.3%	cbioportal
22	PCLO	Ssm	23	289	8%	cbioportal
27	MDN1	Ssm	22	289	7.6%	cbioportal
23	CREBBP	Ssm	22	289	7.6%	cbioportal
24	DNAH2	Ssm	22	289	7.6%	cbioportal
25	FAT1	Ssm	22	289	7.6%	cbioportal
26	HMCN1	Ssm	22	289	7.6%	cbioportal
28	MUC5B	Ssm	22	289	7.6%	cbioportal
29	CSMD1	Ssm	21	289	7.3%	cbioportal
30	HYDIN	Ssm	21	289	7.3%	cbioportal

Data updated 22 days agoSource updated 2026-01-13

Cervical Squamous Cell Carcinoma (TCGA, PanCancer Atlas) cesc_tcga_pan_can_atlas_2018TCGA

291 cases with simple somatic mutation data · 297 cases total · 2026-06-05 · mapped to Cervical Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TTN	Ssm	91	291	31.3%	cbioportal
2	PIK3CA	Ssm	83	291	28.5%	cbioportal
3	KMT2C	Ssm	54	291	18.6%	cbioportal
4	MUC4	Ssm	50	291	17.2%	cbioportal
5	MUC16	Ssm	48	291	16.5%	cbioportal
6	KMT2D	Ssm	41	291	14.1%	cbioportal
7	FLG	Ssm	38	291	13.1%	cbioportal
8	DMD	Ssm	37	291	12.7%	cbioportal
9	SYNE1	Ssm	37	291	12.7%	cbioportal
10	EP300	Ssm	35	291	12%	cbioportal
11	FBXW7	Ssm	35	291	12%	cbioportal
12	RYR2	Ssm	35	291	12%	cbioportal
14	USH2A	Ssm	33	291	11.3%	cbioportal
13	LRP1B	Ssm	33	291	11.3%	cbioportal
16	MUC17	Ssm	30	291	10.3%	cbioportal
15	ADGRV1	Ssm	30	291	10.3%	cbioportal
17	HUWE1	Ssm	28	291	9.6%	cbioportal
18	CSMD1	Ssm	27	291	9.3%	cbioportal
19	NEB	Ssm	26	291	8.9%	cbioportal
20	NAV3	Ssm	25	291	8.6%	cbioportal
23	LRP2	Ssm	24	291	8.2%	cbioportal
22	HMCN1	Ssm	24	291	8.2%	cbioportal
24	PCLO	Ssm	24	291	8.2%	cbioportal
25	SYNE2	Ssm	24	291	8.2%	cbioportal
21	AHNAK2	Ssm	24	291	8.2%	cbioportal
29	EYS	Ssm	23	291	7.9%	cbioportal
26	CREBBP	Ssm	23	291	7.9%	cbioportal
27	DNAH2	Ssm	23	291	7.9%	cbioportal
28	DST	Ssm	23	291	7.9%	cbioportal
30	FAT1	Ssm	23	291	7.9%	cbioportal

Data updated 22 days agoSource updated 2026-06-05

Cutaneous Squamous Cell Carcinoma (DFCI, Clin Cancer Res 2015) cscc_dfarber_2015DFCI

29 cases with simple somatic mutation data · 29 cases total · 2026-01-07 · mapped to Skin Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	23	29	79.3%	cbioportal
2	LRP2	Ssm	16	29	55.2%	cbioportal
3	PKHD1	Ssm	15	29	51.7%	cbioportal
4	SYNE1	Ssm	15	29	51.7%	cbioportal
7	LRP1B	Ssm	14	29	48.3%	cbioportal
8	MUC2	Ssm	14	29	48.3%	cbioportal
9	NOTCH1	Ssm	14	29	48.3%	cbioportal
5	CUBN	Ssm	14	29	48.3%	cbioportal
6	KMT2D	Ssm	14	29	48.3%	cbioportal
11	PRKDC	Ssm	13	29	44.8%	cbioportal
10	CDKN2A	Ssm	13	29	44.8%	cbioportal
12	KIAA1549	Ssm	12	29	41.4%	cbioportal
13	ROS1	Ssm	12	29	41.4%	cbioportal
14	MAGI2	Ssm	11	29	37.9%	cbioportal
15	PREX2	Ssm	11	29	37.9%	cbioportal
19	MTUS2	Ssm	10	29	34.5%	cbioportal
17	BRCA2	Ssm	10	29	34.5%	cbioportal
16	ATM	Ssm	10	29	34.5%	cbioportal
20	TET1	Ssm	10	29	34.5%	cbioportal
18	EP300	Ssm	10	29	34.5%	cbioportal
24	KDR	Ssm	9	29	31%	cbioportal
22	CREBBP	Ssm	9	29	31%	cbioportal
21	ATR	Ssm	9	29	31%	cbioportal
23	ERBB4	Ssm	9	29	31%	cbioportal
25	NOTCH2	Ssm	9	29	31%	cbioportal
27	AFF3	Ssm	8	29	27.6%	cbioportal
26	ADGRL2	Ssm	8	29	27.6%	cbioportal
28	ARID2	Ssm	8	29	27.6%	cbioportal
29	EPHA7	Ssm	8	29	27.6%	cbioportal
30	LAMA5	Ssm	8	29	27.6%	cbioportal

Data updated 22 days agoSource updated 2026-01-07

Cutaneous Squamous Cell Carcinoma (MD Anderson, Clin Cancer Res 2014) cscc_hgsc_bcm_2014MD Anderson

39 cases with simple somatic mutation data · 39 cases total · 2026-01-07 · mapped to Skin Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	37	39	94.9%	cbioportal
2	TTN	Ssm	36	39	92.3%	cbioportal
4	MUC16	Ssm	34	39	87.2%	cbioportal
3	LRP1B	Ssm	34	39	87.2%	cbioportal
6	CSMD3	Ssm	32	39	82.1%	cbioportal
5	CSMD1	Ssm	32	39	82.1%	cbioportal
7	ABCA13	Ssm	31	39	79.5%	cbioportal
9	RYR2	Ssm	31	39	79.5%	cbioportal
8	PCLO	Ssm	31	39	79.5%	cbioportal
10	PKHD1L1	Ssm	30	39	76.9%	cbioportal
13	PCDH15	Ssm	29	39	74.4%	cbioportal
11	COL11A1	Ssm	29	39	74.4%	cbioportal
12	FAT4	Ssm	29	39	74.4%	cbioportal
16	KMT2D	Ssm	28	39	71.8%	cbioportal
14	DNAH7	Ssm	28	39	71.8%	cbioportal
15	FAT3	Ssm	28	39	71.8%	cbioportal
17	XIRP2	Ssm	28	39	71.8%	cbioportal
18	ADGRV1	Ssm	27	39	69.2%	cbioportal
19	DNAH5	Ssm	27	39	69.2%	cbioportal
20	FMN2	Ssm	27	39	69.2%	cbioportal
21	MUC4	Ssm	27	39	69.2%	cbioportal
22	COL1A2	Ssm	26	39	66.7%	cbioportal
23	VCAN	Ssm	26	39	66.7%	cbioportal
24	APOB	Ssm	25	39	64.1%	cbioportal
25	MUC5B	Ssm	25	39	64.1%	cbioportal
26	RYR3	Ssm	25	39	64.1%	cbioportal
27	SPTA1	Ssm	25	39	64.1%	cbioportal
28	UNC13C	Ssm	25	39	64.1%	cbioportal
29	ZFHX4	Ssm	25	39	64.1%	cbioportal
30	AHNAK2	Ssm	24	39	61.5%	cbioportal

Data updated 22 days agoSource updated 2026-01-07

Cutaneous Squamous Cell Carcinoma (UCSF, NPJ Genom Med 2021) cscc_ucsf_2021UCSF

83 cases with simple somatic mutation data · 83 cases total · 2026-01-07 · mapped to Skin Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TTN	Ssm	58	83	69.9%	cbioportal
2	TP53	Ssm	55	83	66.3%	cbioportal
3	NOTCH1	Ssm	46	83	55.4%	cbioportal
4	USH2A	Ssm	40	83	48.2%	cbioportal
5	CSMD3	Ssm	39	83	47%	cbioportal
6	RELN	Ssm	39	83	47%	cbioportal
7	DNAH5	Ssm	38	83	45.8%	cbioportal
8	LRP1B	Ssm	37	83	44.6%	cbioportal
9	SPTA1	Ssm	37	83	44.6%	cbioportal
10	HMCN1	Ssm	36	83	43.4%	cbioportal
11	APOB	Ssm	35	83	42.2%	cbioportal
12	FAT4	Ssm	35	83	42.2%	cbioportal
13	PKHD1	Ssm	33	83	39.8%	cbioportal
14	DNAH8	Ssm	32	83	38.6%	cbioportal
15	MUC16	Ssm	32	83	38.6%	cbioportal
16	PCDH15	Ssm	32	83	38.6%	cbioportal
17	SYNE1	Ssm	32	83	38.6%	cbioportal
18	COL11A1	Ssm	31	83	37.3%	cbioportal
19	COL6A3	Ssm	31	83	37.3%	cbioportal
20	DNAH7	Ssm	30	83	36.1%	cbioportal
23	RYR1	Ssm	30	83	36.1%	cbioportal
21	LRP2	Ssm	30	83	36.1%	cbioportal
22	NOTCH2	Ssm	30	83	36.1%	cbioportal
25	COL24A1	Ssm	29	83	34.9%	cbioportal
27	FLG	Ssm	29	83	34.9%	cbioportal
28	HYDIN	Ssm	29	83	34.9%	cbioportal
29	KALRN	Ssm	29	83	34.9%	cbioportal
24	ANK2	Ssm	29	83	34.9%	cbioportal
26	DCHS2	Ssm	29	83	34.9%	cbioportal
30	BLTP1	Ssm	28	83	33.7%	cbioportal

Data updated 22 days agoSource updated 2026-01-07

Cutaneous Squamous Cell Carcinoma (UOW, Front Oncol 2022) cscc_ranson_2022UOW

25 cases with simple somatic mutation data · 25 cases total · 2026-01-16 · mapped to Skin Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
2	MUC16	Ssm	25	25	100%	cbioportal
3	TTN	Ssm	25	25	100%	cbioportal
1	ABCA13	Ssm	25	25	100%	cbioportal
7	CSMD3	Ssm	24	25	96%	cbioportal
9	TP53	Ssm	24	25	96%	cbioportal
8	MUC12	Ssm	24	25	96%	cbioportal
6	COL6A5	Ssm	24	25	96%	cbioportal
5	AHNAK2	Ssm	24	25	96%	cbioportal
4	AHNAK	Ssm	24	25	96%	cbioportal
10	APOB	Ssm	23	25	92%	cbioportal
15	RP1	Ssm	23	25	92%	cbioportal
16	RYR2	Ssm	23	25	92%	cbioportal
17	ZNF804B	Ssm	23	25	92%	cbioportal
11	CUBN	Ssm	23	25	92%	cbioportal
12	DNAH5	Ssm	23	25	92%	cbioportal
14	HYDIN	Ssm	23	25	92%	cbioportal
13	FAT3	Ssm	23	25	92%	cbioportal
27	ZNF469	Ssm	22	25	88%	cbioportal
18	HMCN1	Ssm	22	25	88%	cbioportal
19	LRP1B	Ssm	22	25	88%	cbioportal
20	MUC5B	Ssm	22	25	88%	cbioportal
21	PCLO	Ssm	22	25	88%	cbioportal
22	PLEC	Ssm	22	25	88%	cbioportal
23	RYR3	Ssm	22	25	88%	cbioportal
24	SYNE1	Ssm	22	25	88%	cbioportal
25	USH2A	Ssm	22	25	88%	cbioportal
26	WDFY4	Ssm	22	25	88%	cbioportal
32	COL22A1	Ssm	21	25	84%	cbioportal
28	ADGRV1	Ssm	21	25	84%	cbioportal
31	COL11A1	Ssm	21	25	84%	cbioportal

Data updated 22 days agoSource updated 2026-01-16

Esophageal Squamous Cell Carcinoma (ICGC, Nature 2014) escc_icgcICGC

88 cases with simple somatic mutation data · 88 cases total · 2026-01-07 · mapped to Esophageal Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	73	88	83%	cbioportal
2	TTN	Ssm	28	88	31.8%	cbioportal
3	MUC16	Ssm	12	88	13.6%	cbioportal
4	PCLO	Ssm	12	88	13.6%	cbioportal
5	ZFHX4	Ssm	11	88	12.5%	cbioportal
6	LRP1B	Ssm	10	88	11.4%	cbioportal
8	NOTCH1	Ssm	8	88	9.1%	cbioportal
7	DMD	Ssm	8	88	9.1%	cbioportal
12	RB1	Ssm	7	88	8%	cbioportal
9	CSMD3	Ssm	7	88	8%	cbioportal
13	SYNE1	Ssm	7	88	8%	cbioportal
10	DNAH6	Ssm	7	88	8%	cbioportal
11	PKHD1L1	Ssm	7	88	8%	cbioportal
19	FAT3	Ssm	6	88	6.8%	cbioportal
15	CACNA1E	Ssm	6	88	6.8%	cbioportal
16	DNAH14	Ssm	6	88	6.8%	cbioportal
17	DNAH17	Ssm	6	88	6.8%	cbioportal
18	FAM135B	Ssm	6	88	6.8%	cbioportal
24	USH2A	Ssm	6	88	6.8%	cbioportal
20	FAT4	Ssm	6	88	6.8%	cbioportal
21	MACF1	Ssm	6	88	6.8%	cbioportal
22	RP1	Ssm	6	88	6.8%	cbioportal
23	RYR2	Ssm	6	88	6.8%	cbioportal
14	ADGRV1	Ssm	6	88	6.8%	cbioportal
29	COL6A3	Ssm	5	88	5.7%	cbioportal
27	CACNA1A	Ssm	5	88	5.7%	cbioportal
26	ADGB	Ssm	5	88	5.7%	cbioportal
25	ABCA13	Ssm	5	88	5.7%	cbioportal
28	COL24A1	Ssm	5	88	5.7%	cbioportal
30	CREBBP	Ssm	5	88	5.7%	cbioportal

Data updated 22 days agoSource updated 2026-01-07

Esophageal Squamous Cell Carcinoma (UCLA, Nat Genet 2014) escc_ucla_2014UCLA

139 cases with simple somatic mutation data · 139 cases total · 2026-01-07 · mapped to Esophageal Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	83	139	59.7%	cbioportal
2	TTN	Ssm	49	139	35.3%	cbioportal
180	ZNF676	Ssm	4	20	20%	cbioportal
152	MYH2	Ssm	4	20	20%	cbioportal
3	KMT2D	Ssm	25	139	18%	cbioportal
4	MUC16	Ssm	20	139	14.4%	cbioportal
5	SYNE1	Ssm	18	139	12.9%	cbioportal
6	FAT1	Ssm	16	139	11.5%	cbioportal
7	ADGRV1	Ssm	15	139	10.8%	cbioportal
8	CSMD3	Ssm	15	139	10.8%	cbioportal
9	LRP1B	Ssm	15	139	10.8%	cbioportal
10	PCLO	Ssm	14	139	10.1%	cbioportal
11	XIRP2	Ssm	13	139	9.4%	cbioportal
12	ABCA13	Ssm	12	139	8.6%	cbioportal
14	HMCN1	Ssm	12	139	8.6%	cbioportal
13	FAT2	Ssm	12	139	8.6%	cbioportal
15	MUC4	Ssm	12	139	8.6%	cbioportal
22	MUC17	Ssm	11	139	7.9%	cbioportal
20	KMT2C	Ssm	11	139	7.9%	cbioportal
19	FSIP2	Ssm	11	139	7.9%	cbioportal
18	EP300	Ssm	11	139	7.9%	cbioportal
24	NOTCH1	Ssm	11	139	7.9%	cbioportal
23	MUC2	Ssm	11	139	7.9%	cbioportal
21	LRP2	Ssm	11	139	7.9%	cbioportal
16	DMD	Ssm	11	139	7.9%	cbioportal
17	DNAH5	Ssm	11	139	7.9%	cbioportal
26	RB1	Ssm	11	139	7.9%	cbioportal
25	PIK3CA	Ssm	11	139	7.9%	cbioportal
30	SYNE2	Ssm	10	139	7.2%	cbioportal
29	HYDIN	Ssm	10	139	7.2%	cbioportal

Data updated 22 days agoSource updated 2026-01-07

Head and Neck Squamous Cell Carcinoma TCGA-HNSCTCGA

528 cases with simple somatic mutation data · 528 cases total · Data Release 46.0 · mapped to Head and Neck Squamous Cell Carcinoma ONTOLOGY_EXACT

gdcObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	392	528	74.2%	gdc
2	PIK3CA	Ssm	390	528	73.9%	gdc
3	CSMD3	Ssm	387	528	73.3%	gdc
4	CDKN2A	Ssm	384	528	72.7%	gdc
5	FAM135B	Ssm	383	528	72.5%	gdc
6	PLD1	Ssm	377	528	71.4%	gdc
7	COL22A1	Ssm	376	528	71.2%	gdc
8	CLDN16	Ssm	374	528	70.8%	gdc
13	TP63	Ssm	373	528	70.6%	gdc
11	PKHD1L1	Ssm	373	528	70.6%	gdc
10	MB21D2	Ssm	373	528	70.6%	gdc
9	BCL6	Ssm	373	528	70.6%	gdc
12	SI	Ssm	373	528	70.6%	gdc
14	IL1RAP	Ssm	373	528	70.6%	gdc
17	MUC4	Ssm	372	528	70.5%	gdc
18	COL14A1	Ssm	372	528	70.5%	gdc
19	SPATA16	Ssm	372	528	70.5%	gdc
20	OSTN	Ssm	372	528	70.5%	gdc
15	EIF4G1	Ssm	372	528	70.5%	gdc
16	RUBCN	Ssm	372	528	70.5%	gdc
22	FGF12	Ssm	371	528	70.3%	gdc
29	NLGN1	Ssm	371	528	70.3%	gdc
21	ADCY8	Ssm	371	528	70.3%	gdc
23	BDH1	Ssm	371	528	70.3%	gdc
24	MELTF	Ssm	371	528	70.3%	gdc
25	LPP	Ssm	371	528	70.3%	gdc
26	CCDC50	Ssm	371	528	70.3%	gdc
27	SLC7A14	Ssm	371	528	70.3%	gdc
28	FER1L6	Ssm	371	528	70.3%	gdc
30	PLEC	Ssm	371	528	70.3%	gdc

Data updated 22 days agoSource updated Data Release 46.0

Head and Neck Squamous Cell Carcinoma (Broad, Science 2011) hnsc_broadBroad

74 cases with simple somatic mutation data · 74 cases total · 2026-01-07 · mapped to Head and Neck Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	46	74	62.2%	cbioportal
2	TTN	Ssm	22	74	29.7%	cbioportal
3	SYNE1	Ssm	15	74	20.3%	cbioportal
4	MUC16	Ssm	14	74	18.9%	cbioportal
5	CSMD3	Ssm	12	74	16.2%	cbioportal
6	USH2A	Ssm	11	74	14.9%	cbioportal
7	RYR2	Ssm	10	74	13.5%	cbioportal
10	CUBN	Ssm	9	74	12.2%	cbioportal
11	FAT1	Ssm	9	74	12.2%	cbioportal
16	ZFHX4	Ssm	9	74	12.2%	cbioportal
15	PRDM9	Ssm	9	74	12.2%	cbioportal
14	NOTCH1	Ssm	9	74	12.2%	cbioportal
13	LRP1B	Ssm	9	74	12.2%	cbioportal
12	FAT3	Ssm	9	74	12.2%	cbioportal
8	CDKN2A	Ssm	9	74	12.2%	cbioportal
9	COL22A1	Ssm	9	74	12.2%	cbioportal
17	FAT2	Ssm	8	74	10.8%	cbioportal
22	PCLO	Ssm	8	74	10.8%	cbioportal
21	NAV3	Ssm	8	74	10.8%	cbioportal
20	KMT2D	Ssm	8	74	10.8%	cbioportal
19	HMCN1	Ssm	8	74	10.8%	cbioportal
18	FAT4	Ssm	8	74	10.8%	cbioportal
27	SI	Ssm	7	74	9.5%	cbioportal
23	FLG	Ssm	7	74	9.5%	cbioportal
28	THSD7A	Ssm	7	74	9.5%	cbioportal
29	ZNF804B	Ssm	7	74	9.5%	cbioportal
24	FREM2	Ssm	7	74	9.5%	cbioportal
25	NSD1	Ssm	7	74	9.5%	cbioportal
26	RIMS2	Ssm	7	74	9.5%	cbioportal
30	ADCY8	Ssm	6	74	8.1%	cbioportal

Data updated 22 days agoSource updated 2026-01-07

Head and Neck Squamous Cell Carcinoma (Johns Hopkins, Science 2011) hnsc_jhuJohns Hopkins

32 cases with simple somatic mutation data · 32 cases total · 2026-01-07 · mapped to Head and Neck Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	22	32	68.8%	cbioportal
2	NOTCH1	Ssm	4	32	12.5%	cbioportal
3	RELN	Ssm	4	32	12.5%	cbioportal
4	SYNE1	Ssm	4	32	12.5%	cbioportal
10	RIMBP2	Ssm	3	32	9.4%	cbioportal
9	PIK3CA	Ssm	3	32	9.4%	cbioportal
8	PIK3AP1	Ssm	3	32	9.4%	cbioportal
7	HRAS	Ssm	3	32	9.4%	cbioportal
6	FLG	Ssm	3	32	9.4%	cbioportal
5	EPHA7	Ssm	3	32	9.4%	cbioportal
11	SI	Ssm	3	32	9.4%	cbioportal
20	ENPP1	Ssm	2	32	6.3%	cbioportal
19	DNAI3	Ssm	2	32	6.3%	cbioportal
18	CSMD3	Ssm	2	32	6.3%	cbioportal
17	CR2	Ssm	2	32	6.3%	cbioportal
16	CELSR3	Ssm	2	32	6.3%	cbioportal
15	CDKN2A	Ssm	2	32	6.3%	cbioportal
14	CACNA1D	Ssm	2	32	6.3%	cbioportal
13	ABCD4	Ssm	2	32	6.3%	cbioportal
12	ABCA6	Ssm	2	32	6.3%	cbioportal
22	FBXW7	Ssm	2	32	6.3%	cbioportal
30	MMP16	Ssm	2	32	6.3%	cbioportal
29	MICAL2	Ssm	2	32	6.3%	cbioportal
28	MAMDC4	Ssm	2	32	6.3%	cbioportal
27	LRP1B	Ssm	2	32	6.3%	cbioportal
26	LAMA1	Ssm	2	32	6.3%	cbioportal
25	INSC	Ssm	2	32	6.3%	cbioportal
24	GRID1	Ssm	2	32	6.3%	cbioportal
23	GALNT14	Ssm	2	32	6.3%	cbioportal
21	FAT4	Ssm	2	32	6.3%	cbioportal

Data updated 22 days agoSource updated 2026-01-07

Head and Neck Squamous Cell Carcinoma (TCGA, Firehose Legacy) hnsc_tcgaTCGA

512 cases with simple somatic mutation data · 530 cases total · 2026-01-07 · mapped to Head and Neck Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	366	512	71.5%	cbioportal
2	TTN	Ssm	217	512	42.4%	cbioportal
3	FAT1	Ssm	115	512	22.5%	cbioportal
4	CDKN2A	Ssm	113	512	22.1%	cbioportal
5	FRG1BP	Ssm	106	512	20.7%	cbioportal
6	CSMD3	Ssm	105	512	20.5%	cbioportal
7	MUC16	Ssm	102	512	19.9%	cbioportal
8	PIK3CA	Ssm	94	512	18.4%	cbioportal
9	SYNE1	Ssm	92	512	18%	cbioportal
10	NOTCH1	Ssm	91	512	17.8%	cbioportal
11	LRP1B	Ssm	90	512	17.6%	cbioportal
12	KMT2D	Ssm	84	512	16.4%	cbioportal
13	PCLO	Ssm	82	512	16%	cbioportal
14	FLG	Ssm	76	512	14.8%	cbioportal
15	DNAH5	Ssm	70	512	13.7%	cbioportal
16	USH2A	Ssm	65	512	12.7%	cbioportal
17	NSD1	Ssm	62	512	12.1%	cbioportal
18	RYR2	Ssm	60	512	11.7%	cbioportal
19	PKHD1L1	Ssm	57	512	11.1%	cbioportal
20	XIRP2	Ssm	55	512	10.7%	cbioportal
22	SI	Ssm	54	512	10.5%	cbioportal
21	CASP8	Ssm	54	512	10.5%	cbioportal
23	AHNAK	Ssm	51	512	10%	cbioportal
25	FAM135B	Ssm	50	512	9.8%	cbioportal
24	DMD	Ssm	50	512	9.8%	cbioportal
26	COL11A1	Ssm	49	512	9.6%	cbioportal
30	RELN	Ssm	46	512	9%	cbioportal
27	HUWE1	Ssm	46	512	9%	cbioportal
28	PAPPA2	Ssm	46	512	9%	cbioportal
29	PCDH15	Ssm	46	512	9%	cbioportal

Data updated 22 days agoSource updated 2026-01-07

Head and Neck Squamous Cell Carcinoma (TCGA GDC, 2025) hnsc_tcga_gdcTCGA GDC

510 cases with simple somatic mutation data · 530 cases total · 2026-01-13 · mapped to Head and Neck Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	357	510	70%	cbioportal
2	TTN	Ssm	188	510	36.9%	cbioportal
3	FAT1	Ssm	108	510	21.2%	cbioportal
4	CDKN2A	Ssm	103	510	20.2%	cbioportal
5	CSMD3	Ssm	91	510	17.8%	cbioportal
6	MUC16	Ssm	90	510	17.6%	cbioportal
7	NOTCH1	Ssm	89	510	17.5%	cbioportal
8	PIK3CA	Ssm	85	510	16.7%	cbioportal
9	SYNE1	Ssm	83	510	16.3%	cbioportal
10	LRP1B	Ssm	79	510	15.5%	cbioportal
12	PCLO	Ssm	70	510	13.7%	cbioportal
11	KMT2D	Ssm	70	510	13.7%	cbioportal
13	DNAH5	Ssm	65	510	12.7%	cbioportal
14	FLG	Ssm	58	510	11.4%	cbioportal
15	USH2A	Ssm	58	510	11.4%	cbioportal
16	NSD1	Ssm	56	510	11%	cbioportal
17	CASP8	Ssm	53	510	10.4%	cbioportal
18	RYR2	Ssm	50	510	9.8%	cbioportal
19	XIRP2	Ssm	48	510	9.4%	cbioportal
21	PKHD1L1	Ssm	47	510	9.2%	cbioportal
20	FAM135B	Ssm	47	510	9.2%	cbioportal
22	AHNAK	Ssm	46	510	9%	cbioportal
25	HUWE1	Ssm	45	510	8.8%	cbioportal
23	DMD	Ssm	45	510	8.8%	cbioportal
24	DST	Ssm	45	510	8.8%	cbioportal
26	SI	Ssm	44	510	8.6%	cbioportal
28	RELN	Ssm	43	510	8.4%	cbioportal
27	PAPPA2	Ssm	43	510	8.4%	cbioportal
29	FAT3	Ssm	42	510	8.2%	cbioportal
30	COL11A1	Ssm	41	510	8%	cbioportal

Data updated 22 days agoSource updated 2026-01-13

Head and Neck Squamous Cell Carcinoma (TCGA, Nature 2015) hnsc_tcga_pubTCGA

279 cases with simple somatic mutation data · 279 cases total · 2026-01-07 · mapped to Head and Neck Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	207	279	74.2%	cbioportal
2	TTN	Ssm	127	279	45.5%	cbioportal
3	CSMD3	Ssm	66	279	23.7%	cbioportal
4	FAT1	Ssm	64	279	22.9%	cbioportal
5	CDKN2A	Ssm	63	279	22.6%	cbioportal
6	MUC16	Ssm	60	279	21.5%	cbioportal
7	PIK3CA	Ssm	58	279	20.8%	cbioportal
8	LRP1B	Ssm	57	279	20.4%	cbioportal
9	NOTCH1	Ssm	52	279	18.6%	cbioportal
10	KMT2D	Ssm	49	279	17.6%	cbioportal
11	SYNE1	Ssm	49	279	17.6%	cbioportal
12	FLG	Ssm	44	279	15.8%	cbioportal
14	PCLO	Ssm	42	279	15.1%	cbioportal
13	DNAH5	Ssm	42	279	15.1%	cbioportal
15	USH2A	Ssm	36	279	12.9%	cbioportal
16	PKHD1L1	Ssm	35	279	12.5%	cbioportal
17	SI	Ssm	32	279	11.5%	cbioportal
18	DMD	Ssm	31	279	11.1%	cbioportal
20	RYR2	Ssm	31	279	11.1%	cbioportal
19	FRG1BP	Ssm	31	279	11.1%	cbioportal
21	FAM135B	Ssm	30	279	10.8%	cbioportal
22	NSD1	Ssm	29	279	10.4%	cbioportal
23	RELN	Ssm	28	279	10%	cbioportal
25	LAMA2	Ssm	27	279	9.7%	cbioportal
24	COL11A1	Ssm	27	279	9.7%	cbioportal
27	DNAH7	Ssm	26	279	9.3%	cbioportal
26	CUBN	Ssm	26	279	9.3%	cbioportal
28	ADGRV1	Ssm	25	279	9%	cbioportal
29	CSMD1	Ssm	25	279	9%	cbioportal
30	MUC17	Ssm	25	279	9%	cbioportal

Data updated 22 days agoSource updated 2026-01-07

Head and Neck Squamous Cell Carcinoma (TCGA, PanCancer Atlas) hnsc_tcga_pan_can_atlas_2018TCGA

515 cases with simple somatic mutation data · 523 cases total · 2026-06-23 · mapped to Head and Neck Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	357	515	69.3%	cbioportal
2	TTN	Ssm	211	515	41%	cbioportal
3	FAT1	Ssm	111	515	21.6%	cbioportal
4	CDKN2A	Ssm	105	515	20.4%	cbioportal
5	MUC16	Ssm	101	515	19.6%	cbioportal
6	CSMD3	Ssm	97	515	18.8%	cbioportal
7	PIK3CA	Ssm	90	515	17.5%	cbioportal
8	NOTCH1	Ssm	88	515	17.1%	cbioportal
9	LRP1B

Data updated 22 days agoSource updated 2026-06-23

Hereditary SDHB-Mutant Pheochromocytomas and Paragangliomas (A5 Consortium, Nature Comm 2025) hnsc_a5consortium_2025A5 Consortium

94 cases with simple somatic mutation data · 94 cases total · 2026-01-07 · mapped to Head and Neck Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	SDHB	Ssm	66	94	70.2%	cbioportal
2	TERT	Ssm	18	94	19.1%	cbioportal
3	MUC17	Ssm	13	94	13.8%	cbioportal
5	TEX13C	Ssm	11	94	11.7%	cbioportal
4	GTF2I	Ssm	11	94	11.7%	cbioportal
6	ATRX	Ssm	9	94	9.6%	cbioportal
8	TCHH	Ssm	6	94	6.4%	cbioportal
7	MDC1	Ssm	6	94	6.4%	cbioportal
9	BLOC1S5-TXNDC5	Ssm	5	94	5.3%	cbioportal
11	FLG2	Ssm	5	94	5.3%	cbioportal
12	OBSCN	Ssm	5	94	5.3%	cbioportal
10	FAM47C	Ssm	5	94	5.3%	cbioportal
19	LINC01618	Ssm	4	94	4.3%	cbioportal
18	DST	Ssm	4	94	4.3%	cbioportal
17	CACNA1E	Ssm	4	94	4.3%	cbioportal
16	CACNA1A	Ssm	4	94	4.3%	cbioportal
14	BCOR	Ssm	4	94	4.3%	cbioportal
13	ADAMTS2	Ssm	4	94	4.3%	cbioportal
15	BCR	Ssm	4	94	4.3%	cbioportal
27	TTN	Ssm	4	94	4.3%	cbioportal
26	SECISBP2L	Ssm	4	94	4.3%	cbioportal
25	PRR5-ARHGAP8	Ssm	4	94	4.3%	cbioportal
24	PCNT	Ssm	4	94	4.3%	cbioportal
23	NOX5	Ssm	4	94	4.3%	cbioportal
22	NBPF11	Ssm	4	94	4.3%	cbioportal
21	MUC5AC	Ssm	4	94	4.3%	cbioportal
20	MED12	Ssm	4	94	4.3%	cbioportal
30	ANKRD30B	Ssm	3	94	3.2%	cbioportal
29	AMOTL2	Ssm	3	94	3.2%	cbioportal
28	AHNAK	Ssm	3	94	3.2%	cbioportal

Data updated 22 days agoSource updated 2026-01-07

Lung Squamous Cell Carcinoma TCGA-LUSCTCGA

504 cases with simple somatic mutation data · 504 cases total · Data Release 46.0 · mapped to Lung Squamous Cell Carcinoma ONTOLOGY_EXACT

gdcObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	453	504	89.9%	gdc
4	ABCC5	Ssm	444	504	88.1%	gdc
8	EPHB3	Ssm	444	504	88.1%	gdc
7	CCDC39	Ssm	444	504	88.1%	gdc
6	ATP11B	Ssm	444	504	88.1%	gdc
5	EEF1AKMT4-ECE2	Ssm	444	504	88.1%	gdc
3	KLHL6	Ssm	444	504	88.1%	gdc
2	DVL3	Ssm	444	504	88.1%	gdc
10	ACTRT3	Ssm	443	504	87.9%	gdc
19	ABCF3	Ssm	443	504	87.9%	gdc
18	TNIK	Ssm	443	504	87.9%	gdc
17	ZBBX	Ssm	443	504	87.9%	gdc
16	MAGEF1	Ssm	443	504	87.9%	gdc
15	AC131160.1	Ssm	443	504	87.9%	gdc
14	PARL	Ssm	443	504	87.9%	gdc
13	SOX2	Ssm	443	504	87.9%	gdc
12	MECOM	Ssm	443	504	87.9%	gdc
11	HTR3C	Ssm	443	504	87.9%	gdc
9	HTR3E	Ssm	443	504	87.9%	gdc
26	FNDC3B	Ssm	443	504	87.9%	gdc
25	VPS8	Ssm	443	504	87.9%	gdc
24	EIF2B5	Ssm	443	504	87.9%	gdc
23	CHRD	Ssm	443	504	87.9%	gdc
22	MAP6D1	Ssm	443	504	87.9%	gdc
21	DCUN1D1	Ssm	443	504	87.9%	gdc
20	CLCN2	Ssm	443	504	87.9%	gdc
29	SAMD7	Ssm	442	504	87.7%	gdc
46	FXR1	Ssm	442	504	87.7%	gdc
27	LAMP3	Ssm	442	504	87.7%	gdc
28	USP13	Ssm	442	504	87.7%	gdc

Data updated 22 days agoSource updated Data Release 46.0

Lung Squamous Cell Carcinoma (CPTAC, Cell 2021) lusc_cptac_2021CPTAC

108 cases with simple somatic mutation data · 80 cases total · 2026-01-16 · mapped to Lung Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	102	108	94.4%	cbioportal
2	TTN	Ssm	74	108	68.5%	cbioportal
3	CSMD3	Ssm	51	108	47.2%	cbioportal
4	USH2A	Ssm	43	108	39.8%	cbioportal
6	ZFHX4	Ssm	40	108	37%	cbioportal
5	RYR2	Ssm	40	108	37%	cbioportal
8	SYNE1	Ssm	34	108	31.5%	cbioportal
7	LRP1B	Ssm	34	108	31.5%	cbioportal
9	FAM135B	Ssm	33	108	30.6%	cbioportal
10	MUC16	Ssm	33	108	30.6%	cbioportal
11	DNAH5	Ssm	26	108	24.1%	cbioportal
12	KMT2D	Ssm	26	108	24.1%	cbioportal
13	PCDH15	Ssm	25	108	23.1%	cbioportal
14	COL22A1	Ssm	23	108	21.3%	cbioportal
15	COL11A1	Ssm	22	108	20.4%	cbioportal
16	FSIP2	Ssm	22	108	20.4%	cbioportal
17	ADAMTS12	Ssm	21	108	19.4%	cbioportal
18	CDH10	Ssm	21	108	19.4%	cbioportal
19	FAT3	Ssm	21	108	19.4%	cbioportal
20	OBSCN	Ssm	21	108	19.4%	cbioportal
21	RYR3	Ssm	21	108	19.4%	cbioportal
22	XIRP2	Ssm	21	108	19.4%	cbioportal
23	CSMD2	Ssm	20	108	18.5%	cbioportal
24	EYS	Ssm	20	108	18.5%	cbioportal
25	FLG	Ssm	20	108	18.5%	cbioportal
26	NAV3	Ssm	20	108	18.5%	cbioportal
27	PCLO	Ssm	20	108	18.5%	cbioportal
28	UNC80	Ssm	20	108	18.5%	cbioportal
29	CUBN	Ssm	19	108	17.6%	cbioportal
30	ERICH3	Ssm	19	108	17.6%	cbioportal

Data updated 22 days agoSource updated 2026-01-16

Lung Squamous Cell Carcinoma (CPTAC GDC, 2025) lusc_cptac_gdcCPTAC GDC

110 cases with simple somatic mutation data · 110 cases total · 2026-01-14 · mapped to Lung Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	101	110	91.8%	cbioportal
2	TTN	Ssm	72	110	65.5%	cbioportal
3	CSMD3	Ssm	42	110	38.2%	cbioportal
4	USH2A	Ssm	42	110	38.2%	cbioportal
5	RYR2	Ssm	39	110	35.5%	cbioportal
6	ZFHX4	Ssm	34	110	30.9%	cbioportal
7	MUC16	Ssm	33	110	30%	cbioportal
8	SYNE1	Ssm	32	110	29.1%	cbioportal
9	LRP1B	Ssm	31	110	28.2%	cbioportal
10	FAM135B	Ssm	28	110	25.5%	cbioportal
11	KMT2D	Ssm	26	110	23.6%	cbioportal
12	DNAH5	Ssm	24	110	21.8%	cbioportal
13	FSIP2	Ssm	24	110	21.8%	cbioportal
14	COL22A1	Ssm	22	110	20%	cbioportal
16	PCLO	Ssm	21	110	19.1%	cbioportal
15	COL11A1	Ssm	21	110	19.1%	cbioportal
18	MUC19	Ssm	20	110	18.2%	cbioportal
17	LRTM3	Ssm	20	110	18.2%	cbioportal
20	CTNND2	Ssm	19	110	17.3%	cbioportal
22	PCDH15	Ssm	19	110	17.3%	cbioportal
21	EYS	Ssm	19	110	17.3%	cbioportal
23	PRDM9	Ssm	19	110	17.3%	cbioportal
24	RYR3	Ssm	19	110	17.3%	cbioportal
25	XIRP2	Ssm	19	110	17.3%	cbioportal
19	CDH10	Ssm	19	110	17.3%	cbioportal
26	ADAMTS12	Ssm	18	110	16.4%	cbioportal
27	CDKN2A	Ssm	18	110	16.4%	cbioportal
28	CUBN	Ssm	18	110	16.4%	cbioportal
29	NAV3	Ssm	18	110	16.4%	cbioportal
30	PKHD1L1	Ssm	18	110	16.4%	cbioportal

Data updated 22 days agoSource updated 2026-01-14

Lung Squamous Cell Carcinoma (TCGA, Firehose Legacy) lusc_tcgaTCGA

178 cases with simple somatic mutation data · 511 cases total · 2026-01-07 · mapped to Lung Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	145	178	81.5%	cbioportal
2	TTN	Ssm	126	178	70.8%	cbioportal
3	MUC16	Ssm	77	178	43.3%	cbioportal
4	RYR2	Ssm	77	178	43.3%	cbioportal
5	LRP1B	Ssm	69	178	38.8%	cbioportal
6	USH2A	Ssm	68	178	38.2%	cbioportal
7	ZFHX4	Ssm	65	178	36.5%	cbioportal
8	ADAM6	Ssm	53	178	29.8%	cbioportal
9	SYNE1	Ssm	52	178	29.2%	cbioportal
10	RYR3	Ssm	42	178	23.6%	cbioportal
11	SPTA1	Ssm	40	178	22.5%	cbioportal
12	DNAH11	Ssm	39	178	21.9%	cbioportal
14	KMT2D	Ssm	37	178	20.8%	cbioportal
13	FAM135B	Ssm	37	178	20.8%	cbioportal
15	PKHD1	Ssm	37	178	20.8%	cbioportal
18	PKHD1L1	Ssm	36	178	20.2%	cbioportal
17	FLG	Ssm	36	178	20.2%	cbioportal
16	COL11A1	Ssm	36	178	20.2%	cbioportal
19	SI	Ssm	36	178	20.2%	cbioportal
20	ERICH3	Ssm	34	178	19.1%	cbioportal
21	MUC5B	Ssm	34	178	19.1%	cbioportal
22	NAV3	Ssm	34	178	19.1%	cbioportal
25	TENM1	Ssm	33	178	18.5%	cbioportal
23	CUBN	Ssm	33	178	18.5%	cbioportal
24	LRP2	Ssm	33	178	18.5%	cbioportal
27	ZNF536	Ssm	33	178	18.5%	cbioportal
26	XIRP2	Ssm	33	178	18.5%	cbioportal
28	CSMD1	Ssm	32	178	18%	cbioportal
30	CDH10	Ssm	31	178	17.4%	cbioportal
29	ADGRV1	Ssm	31	178	17.4%	cbioportal

Data updated 22 days agoSource updated 2026-01-07

Lung Squamous Cell Carcinoma (TCGA GDC, 2025) lusc_tcga_gdcTCGA GDC

484 cases with simple somatic mutation data · 503 cases total · 2026-01-13 · mapped to Lung Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	408	484	84.3%	cbioportal
2	TTN	Ssm	340	484	70.2%	cbioportal
3	CSMD3	Ssm	205	484	42.4%	cbioportal
4	MUC16	Ssm	187	484	38.6%	cbioportal
5	RYR2	Ssm	179	484	37%	cbioportal
6	LRP1B	Ssm	160	484	33.1%	cbioportal
7	USH2A	Ssm	156	484	32.2%	cbioportal
8	SYNE1	Ssm	148	484	30.6%	cbioportal
9	ZFHX4	Ssm	142	484	29.3%	cbioportal
10	FAM135B	Ssm	112	484	23.1%	cbioportal
11	KMT2D	Ssm	105	484	21.7%	cbioportal
12	NAV3	Ssm	101	484	20.9%	cbioportal
13	XIRP2	Ssm	95	484	19.6%	cbioportal
15	RYR3	Ssm	93	484	19.2%	cbioportal
16	SPTA1	Ssm	93	484	19.2%	cbioportal
14	CDH10	Ssm	93	484	19.2%	cbioportal
17	PKHD1	Ssm	90	484	18.6%	cbioportal
18	PCDH15	Ssm	89	484	18.4%	cbioportal
19	PCLO	Ssm	87	484	18%	cbioportal
20	PAPPA2	Ssm	86	484	17.8%	cbioportal
21	DNAH5	Ssm	84	484	17.4%	cbioportal
22	DNAH8	Ssm	84	484	17.4%	cbioportal
23	PKHD1L1	Ssm	83	484	17.1%	cbioportal
24	MUC17	Ssm	80	484	16.5%	cbioportal
25	FLG	Ssm	79	484	16.3%	cbioportal
26	ADAMTS12	Ssm	78	484	16.1%	cbioportal
27	HCN1	Ssm	78	484	16.1%	cbioportal
28	ERICH3	Ssm	77	484	15.9%	cbioportal
29	SI	Ssm	77	484	15.9%	cbioportal
30	COL11A1	Ssm	76	484	15.7%	cbioportal

Data updated 22 days agoSource updated 2026-01-13

Lung Squamous Cell Carcinoma (TCGA, Nature 2012) lusc_tcga_pubTCGA

178 cases with simple somatic mutation data · 178 cases total · 2026-02-19 · mapped to Lung Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	149	178	83.7%	cbioportal
2	TTN	Ssm	129	178	72.5%	cbioportal
3	CSMD3	Ssm	80	178	44.9%	cbioportal
4	RYR2	Ssm	78	178	43.8%	cbioportal
5	MUC16	Ssm	74	178	41.6%	cbioportal
6	LRP1B	Ssm	68	178	38.2%	cbioportal
7	ZFHX4	Ssm	68	178	38.2%	cbioportal
8	USH2A	Ssm	67	178	37.6%	cbioportal
9	SYNE1	Ssm	52	178	29.2%	cbioportal
10	RYR3	Ssm	49	178	27.5%	cbioportal
11	DNAH11	Ssm	40	178	22.5%	cbioportal
12	FLG	Ssm	40	178	22.5%	cbioportal
13	FAM135B	Ssm	39	178	21.9%	cbioportal
14	PKHD1	Ssm	39	178	21.9%	cbioportal
15	SPTA1	Ssm	39	178	21.9%	cbioportal
16	PKHD1L1	Ssm	38	178	21.3%	cbioportal
17	KMT2D	Ssm	37	178	20.8%	cbioportal
18	SI	Ssm	37	178	20.8%	cbioportal
19	COL11A1	Ssm	36	178	20.2%	cbioportal
20	NAV3	Ssm	36	178	20.2%	cbioportal
21	LRP2	Ssm	35	178	19.7%	cbioportal
22	XIRP2	Ssm	35	178	19.7%	cbioportal
23	ERICH3	Ssm	34	178	19.1%	cbioportal
24	HCN1	Ssm	34	178	19.1%	cbioportal
25	MUC17	Ssm	34	178	19.1%	cbioportal
26	AHNAK2	Ssm	33	178	18.5%	cbioportal
27	CDH10	Ssm	33	178	18.5%	cbioportal
28	CSMD1	Ssm	33	178	18.5%	cbioportal
29	CUBN	Ssm	33	178	18.5%	cbioportal
30	DNAH5	Ssm	33	178	18.5%	cbioportal

Data updated 22 days agoSource updated 2026-02-19

Lung Squamous Cell Carcinoma (TCGA, PanCancer Atlas) lusc_tcga_pan_can_atlas_2018TCGA

484 cases with simple somatic mutation data · 487 cases total · 2026-06-04 · mapped to Lung Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	404	484	83.5%	cbioportal
2	TTN	Ssm	345	484	71.3%	cbioportal
3	CSMD3	Ssm	209	484	43.2%	cbioportal
4	RYR2	Ssm	192	484	39.7%	cbioportal
5	MUC16	Ssm	188	484	38.8%	cbioportal
6	LRP1B	Ssm	171	484	35.3%	cbioportal
7	USH2A	Ssm	160	484	33.1%	cbioportal
8	SYNE1	Ssm	151	484	31.2%	cbioportal
9	ZFHX4	Ssm	143	484	29.5%	cbioportal
10	FAM135B	Ssm	118	484	24.4%	cbioportal
11	KMT2D	Ssm	111	484	22.9%	cbioportal
12	NAV3	Ssm	104	484	21.5%	cbioportal
13	RYR3	Ssm	99	484	20.5%	cbioportal
14	CDH10	Ssm	97	484	20%	cbioportal
15	SPTA1	Ssm	97	484	20%	cbioportal
16	DNAH5	Ssm	93	484	19.2%	cbioportal
17	PCDH15	Ssm	93	484	19.2%	cbioportal
18	XIRP2	Ssm	93	484	19.2%	cbioportal
19	PKHD1L1	Ssm	91	484	18.8%	cbioportal
20	PAPPA2	Ssm	89	484	18.4%	cbioportal
21	PCLO	Ssm	88	484	18.2%	cbioportal
22	PKHD1	Ssm	87	484	18%	cbioportal
23	COL11A1	Ssm	84	484	17.4%	cbioportal
24	ERICH3	Ssm	84	484	17.4%	cbioportal
25	FLG	Ssm	84	484	17.4%	cbioportal
26	SI	Ssm	84	484	17.4%	cbioportal
27	COL22A1	Ssm	83	484	17.1%	cbioportal
28	DNAH8	Ssm	83	484	17.1%	cbioportal
29	RYR1	Ssm	83	484	17.1%	cbioportal
30	CSMD1	Ssm	82	484	16.9%	cbioportal

Data updated 22 days agoSource updated 2026-06-04

Oral Squamous Cell Carcinoma (MD Anderson, Cancer Discov 2013) hnsc_mdanderson_2013MD Anderson

40 cases with simple somatic mutation data · 40 cases total · 2026-01-07 · mapped to Head and Neck Squamous Cell Carcinoma EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	TP53	Ssm	19	40	47.5%	cbioportal
2	TTN	Ssm	5	40	12.5%	cbioportal
4	OR2T35	Ssm	4	40	10%	cbioportal
3	FAT1	Ssm	4	40	10%	cbioportal
8	RYR2	Ssm	3	40	7.5%	cbioportal
7	GPRIN2	Ssm	3	40	7.5%	cbioportal
6	EPHA7	Ssm	3	40	7.5%	cbioportal
5	ARHGAP29	Ssm	3	40	7.5%	cbioportal
25	EPG5	Ssm	2	40	5%	cbioportal
24	EGFR	Ssm	2	40	5%	cbioportal
23	DSC1	Ssm	2	40	5%	cbioportal
22	DMKN	Ssm	2	40	5%	cbioportal
21	DCC	Ssm	2	40	5%	cbioportal
20	CSMD3	Ssm	2	40	5%	cbioportal
19	CRABP2	Ssm	2	40	5%	cbioportal
17	CASP8	Ssm	2	40	5%	cbioportal
16	CACNA1D	Ssm	2	40	5%	cbioportal
15	BBS9	Ssm	2	40	5%	cbioportal
14	ALPI	Ssm	2	40	5%	cbioportal
13	AKAP12	Ssm	2	40	5%	cbioportal
12	AHNAK2	Ssm	2	40	5%	cbioportal
11	ACSF3	Ssm	2	40	5%	cbioportal
10	ABR	Ssm	2	40	5%	cbioportal
9	ABCA6	Ssm	2	40	5%	cbioportal
18	COL11A1	Ssm	2	40	5%	cbioportal
30	HLA-B	Ssm	2	40	5%	cbioportal
29	HCRTR2	Ssm	2	40	5%	cbioportal
28	GDF2	Ssm	2	40	5%	cbioportal
27	GALNT14	Ssm	2	40	5%	cbioportal
26	ERICH3	Ssm	2	40	5%	cbioportal

Data updated 22 days agoSource updated 2026-01-07

Squamous Cell Carcinoma of the Vulva (CUK, Exp Mol Med 2018) vsc_cuk_2018CUK

15 cases with simple somatic mutation data · 15 cases total · 2026-01-16 · mapped to Vaginal Squamous Cell Carcinoma, Not Otherwise Specified EXACT_IDENTIFIER

cbioportalObserved30 genes · frequency = affected / profiled, as published by the cohort.

#	Gene	Alteration	Affected (n)	Profiled (n)	Frequency (%)	Source
1	MAML2	Ssm	6	15	40%	cbioportal
2	ODF1	Ssm	5	15	33.3%	cbioportal
3	SPTBN1	Ssm	5	15	33.3%	cbioportal
4	SYNE1	Ssm	5	15	33.3%	cbioportal
5	TP53	Ssm	5	15	33.3%	cbioportal
6	FAT2	Ssm	4	15	26.7%	cbioportal
7	NRG3	Ssm	4	15	26.7%	cbioportal
8	AHNAK	Ssm	3	15	20%	cbioportal
9	ALMS1	Ssm	3	15	20%	cbioportal
10	AMOTL2	Ssm	3	15	20%	cbioportal
11	ANP32E	Ssm	3	15	20%	cbioportal
12	APC	Ssm	3	15	20%	cbioportal
13	CACNA1B	Ssm	3	15	20%	cbioportal
14	CASP8	Ssm	3	15	20%	cbioportal
15	CREBBP	Ssm	3	15	20%	cbioportal
16	CSMD1	Ssm	3	15	20%	cbioportal
17	DCHS1	Ssm	3	15	20%	cbioportal
18	F5	Ssm	3	15	20%	cbioportal
19	FAM193A	Ssm	3	15	20%	cbioportal
20	FAT1	Ssm	3	15	20%	cbioportal
21	KMT2B	Ssm	3	15	20%	cbioportal
22	KMT2C	Ssm	3	15	20%	cbioportal
23	LAMA5	Ssm	3	15	20%	cbioportal
24	MAML3	Ssm	3	15	20%	cbioportal
25	MDN1	Ssm	3	15	20%	cbioportal
26	NLGN3	Ssm	3	15	20%	cbioportal
27	NRG1	Ssm	3	15	20%	cbioportal
28	PARD3B	Ssm	3	15	20%	cbioportal
30	SHROOM3	Ssm	3	15	20%	cbioportal
29	SCAF4	Ssm	3	15	20%	cbioportal

Data updated 22 days agoSource updated 2026-01-16