Datasets:

electricsheepafrica
/

ovarian-somatic-mutations

sample_id stringlengths 15 15	region stringclasses 4 values	age float64 25 85	age_group stringclasses 4 values	histologic_subtype stringclasses 5 values	stage stringclasses 4 values	grade int64 1 3	platinum_response stringclasses 2 values	msi_status stringclasses 3 values	msi_score float64 0 1	tmb_mut_per_mb float64 0.1 23.6	TP53_mut bool 2 classes	BRCA1_mut bool 2 classes	BRCA2_mut bool 2 classes	NF1_mut bool 2 classes	RB1_mut bool 2 classes	PTEN_mut bool 2 classes	PIK3CA_mut bool 2 classes	KRAS_mut bool 2 classes	ARID1A_mut bool 2 classes	CTNNB1_mut bool 2 classes	CDK12_mut bool 2 classes	ATM_mut bool 2 classes	ATR_mut bool 2 classes	cnv_burden_fraction_genome_altered float64 0 0.89	aneuploidy_score float64 0 16.1	n_focal_amplifications int64 0 19	n_focal_deletions int64 0 14	hrd_score float64 0 100	CCNE1_amp bool 2 classes	MYC_amp bool 2 classes	ERBB2_amp bool 2 classes	PTEN_del bool 2 classes	RB1_del bool 2 classes	NF1_del bool 2 classes
OV_SAMPLE_00000	Southern_Africa	60	50-64	High_grade_serous	IV	3	Sensitive	MSS	0.119812	2.755344	true	false	true	false	false	false	false	false	true	false	false	false	false	0.291792	7.848523	10	5	80.753604	false	true	false	false	true	true
OV_SAMPLE_00001	East_Africa	46.3	35-49	Endometrioid	II	3	Resistant	MSS	0.095225	4.136049	true	false	false	false	false	false	false	true	false	false	false	false	false	0.376524	5.695856	3	4	39.493117	false	false	false	false	false	false
OV_SAMPLE_00002	Central_Africa	52.3	50-64	High_grade_serous	III	3	Sensitive	MSS	0.074812	2.526462	true	false	true	false	false	false	false	false	false	false	false	false	false	0.467641	7.388061	6	4	43.199263	false	false	false	false	false	true
OV_SAMPLE_00003	Southern_Africa	51.2	50-64	High_grade_serous	II	3	Sensitive	MSS	0.10617	4.478555	true	false	true	false	true	false	false	false	true	false	false	false	false	0.374484	6.760736	4	9	52.567874	false	true	false	false	false	false
OV_SAMPLE_00004	West_Africa	35	35-49	Clear_cell	IV	2	Sensitive	MSS	0.158892	3.596424	true	false	false	false	false	false	true	false	true	false	false	true	false	0.407335	4.656952	3	2	32.983836	false	false	false	false	false	false
OV_SAMPLE_00005	Central_Africa	59.3	50-64	High_grade_serous	IV	3	Sensitive	MSS	0.074196	4.538057	true	false	false	false	false	false	false	false	false	false	false	false	false	0.65491	7.170199	8	4	23.485062	false	false	false	false	false	false
OV_SAMPLE_00006	Southern_Africa	65.5	65+	Mucinous	III	1	Sensitive	MSS	0.087104	6.151818	false	false	false	false	false	false	false	false	false	false	false	false	false	0.259883	3.134345	3	2	29.510812	false	false	false	true	false	false
OV_SAMPLE_00007	Southern_Africa	72.9	65+	High_grade_serous	III	3	Resistant	MSS	0.115837	4.997372	true	false	false	false	false	false	false	false	false	false	false	false	false	0.559934	8.333512	7	3	49.378444	false	false	false	false	false	false
OV_SAMPLE_00008	West_Africa	45.5	35-49	High_grade_serous	II	2	Resistant	MSS	0.127789	4.259148	true	false	false	true	false	false	true	false	true	false	true	false	false	0.444498	8.828158	6	2	49.723166	true	false	false	false	false	true
OV_SAMPLE_00009	East_Africa	56.2	50-64	High_grade_serous	I	3	Sensitive	MSS	0.108665	1.62705	true	false	false	true	false	false	false	false	false	false	false	false	false	0.335464	11.222645	8	3	35.871275	false	false	false	false	false	false
OV_SAMPLE_00010	East_Africa	49.3	35-49	High_grade_serous	IV	3	Resistant	MSS	0.100361	3.178436	true	false	false	false	false	false	false	false	false	false	false	false	false	0.438551	8.907329	8	3	25.135251	false	false	false	true	false	false
OV_SAMPLE_00011	Central_Africa	54.7	50-64	Endometrioid	II	3	Resistant	MSS	0.110793	4.497361	true	false	false	false	true	false	false	false	true	false	false	false	false	0.146269	4.496776	3	3	15.134404	true	false	false	false	false	false
OV_SAMPLE_00012	Southern_Africa	39.5	35-49	High_grade_serous	III	3	Sensitive	MSI-L	0.448357	4.100651	true	false	false	false	false	false	false	false	false	false	false	true	false	0.424044	7.997373	9	3	39.404736	false	true	false	false	false	false
OV_SAMPLE_00013	Southern_Africa	53.3	50-64	High_grade_serous	III	2	Sensitive	MSS	0.072304	5.830155	true	false	false	true	false	false	false	false	false	false	false	false	false	0.301503	10.472465	12	2	58.651915	false	false	false	false	true	false
OV_SAMPLE_00014	East_Africa	25.5	<35	Clear_cell	III	3	Sensitive	MSS	0.109521	6.864684	true	false	false	false	false	false	false	false	false	false	true	false	false	0.373637	7.623586	1	1	56.714128	false	false	false	false	true	false
OV_SAMPLE_00015	West_Africa	44.1	35-49	Mucinous	III	1	Sensitive	MSS	0.082615	2.808243	false	false	false	false	false	false	false	false	false	false	false	false	false	0.203412	4.502954	1	3	20.111878	true	false	false	false	false	false
OV_SAMPLE_00016	East_Africa	47.8	35-49	Endometrioid	III	3	Resistant	MSS	0.122233	5.031525	true	false	false	false	false	false	false	false	false	true	false	false	false	0.301551	4.886054	4	2	43.68619	false	false	false	false	false	false
OV_SAMPLE_00017	West_Africa	47.3	35-49	High_grade_serous	II	3	Resistant	MSS	0.150936	4.252615	false	false	true	false	false	false	false	false	false	false	false	false	false	0.469772	7.065258	9	6	40.925776	false	true	false	false	false	false
OV_SAMPLE_00018	Southern_Africa	52	50-64	High_grade_serous	IV	2	Sensitive	MSS	0.055107	1.859121	true	true	false	false	false	false	false	false	false	false	false	false	false	0.366983	8.766847	1	2	59.201501	false	false	false	false	false	false
OV_SAMPLE_00019	Southern_Africa	64.9	50-64	High_grade_serous	IV	2	Sensitive	MSS	0.123116	3.555029	true	false	false	false	false	false	false	false	false	false	false	false	false	0.418326	8.119079	5	4	32.245384	false	false	false	false	false	false
OV_SAMPLE_00020	Southern_Africa	74.1	65+	High_grade_serous	II	3	Sensitive	MSS	0.116061	3.270557	true	true	false	false	false	false	true	false	true	false	false	false	false	0.451303	5.709872	10	4	47.429378	false	false	false	false	false	false
OV_SAMPLE_00021	East_Africa	37.5	35-49	Other	III	2	Sensitive	MSS	0.088764	6.149527	false	false	false	false	false	false	false	false	false	false	false	false	false	0.376898	4.133283	4	6	26.64966	false	false	false	false	false	true
OV_SAMPLE_00022	Central_Africa	62.9	50-64	Endometrioid	III	1	Resistant	MSI-L	0.446735	3.778438	true	false	false	false	false	false	false	false	false	true	false	false	false	0.240815	1.370177	6	1	23.905825	false	false	false	false	false	false
OV_SAMPLE_00023	Central_Africa	49.3	35-49	High_grade_serous	III	3	Sensitive	MSS	0.112783	3.784752	true	false	false	false	false	false	false	false	false	false	false	false	true	0.319156	7.364732	6	6	43.392693	false	false	false	false	false	true
OV_SAMPLE_00024	Southern_Africa	58.8	50-64	High_grade_serous	IV	3	Sensitive	MSS	0.142698	3.564383	true	false	false	true	false	false	false	false	false	false	false	false	false	0.316214	8.125254	4	2	26.335283	false	true	false	false	false	false
OV_SAMPLE_00025	West_Africa	57	50-64	High_grade_serous	IV	3	Resistant	MSS	0.122125	3.681978	true	false	false	false	false	true	true	false	false	false	false	false	false	0.479082	9.988985	7	2	21.52164	false	true	false	true	false	false
OV_SAMPLE_00026	East_Africa	41.6	35-49	High_grade_serous	I	1	Sensitive	MSS	0.02292	3.871623	true	false	false	false	false	false	false	false	false	false	false	false	false	0.413013	5.364381	9	5	56.473887	false	false	false	false	false	false
OV_SAMPLE_00027	West_Africa	59.4	50-64	High_grade_serous	IV	3	Sensitive	MSS	0	2.013792	true	false	false	false	false	false	false	false	true	false	false	false	false	0.312154	9.136581	3	6	57.707553	false	false	false	false	false	false
OV_SAMPLE_00028	West_Africa	43.9	35-49	Endometrioid	I	3	Sensitive	MSS	0.053588	2.313666	false	true	false	false	false	false	false	false	false	false	false	false	false	0.111307	5.293055	3	2	28.301102	false	false	false	true	false	false
OV_SAMPLE_00029	Southern_Africa	54.8	50-64	High_grade_serous	III	3	Sensitive	MSS	0.182361	5.918273	true	false	false	false	false	false	false	false	false	false	false	false	false	0.619189	6.884947	2	1	71.931638	false	false	false	false	false	true
OV_SAMPLE_00030	Southern_Africa	62.9	50-64	High_grade_serous	I	3	Resistant	MSS	0.166232	4.358585	true	false	false	false	false	false	false	false	false	false	false	false	false	0.561408	11.743023	4	2	56.554015	false	true	false	false	false	false
OV_SAMPLE_00031	Central_Africa	64	50-64	High_grade_serous	III	1	Resistant	MSS	0.115829	4.668226	true	false	false	false	false	false	false	false	false	false	false	true	false	0.50875	7.143251	9	2	39.300655	false	false	false	false	false	false
OV_SAMPLE_00032	East_Africa	62	50-64	High_grade_serous	III	3	Sensitive	MSS	0.038736	3.076298	true	false	false	true	true	false	false	false	false	false	false	false	false	0.446244	2.580373	4	4	28.986031	true	true	false	false	false	false
OV_SAMPLE_00033	East_Africa	35.1	35-49	High_grade_serous	II	3	Sensitive	MSS	0.140003	6.185159	true	true	true	false	false	false	true	false	false	false	false	false	false	0.385469	10.441002	8	0	74.763166	false	false	false	false	false	false
OV_SAMPLE_00034	East_Africa	54.9	50-64	High_grade_serous	III	2	Sensitive	MSS	0.054605	4.490404	true	false	false	true	false	false	false	false	false	false	false	false	false	0.435513	6.322703	5	6	32.378595	false	false	false	false	false	false
OV_SAMPLE_00035	West_Africa	46.1	35-49	High_grade_serous	III	3	Sensitive	MSS	0.03491	2.123427	true	false	false	false	false	false	false	false	false	false	false	false	true	0.358835	8.783503	4	1	65.121575	false	false	false	false	true	true
OV_SAMPLE_00036	West_Africa	64.8	50-64	High_grade_serous	III	3	Resistant	MSS	0.101468	2.139227	true	false	false	false	false	false	false	false	false	false	false	false	false	0.442686	4.474523	3	4	30.435564	false	false	false	false	false	false
OV_SAMPLE_00037	East_Africa	46.9	35-49	High_grade_serous	III	2	Resistant	MSS	0.102726	4.153445	true	false	false	true	false	false	false	false	false	false	false	false	true	0.466012	3.244577	7	3	54.467261	false	false	false	false	false	false
OV_SAMPLE_00038	West_Africa	71.1	65+	High_grade_serous	III	3	Resistant	MSS	0.11973	5.267299	false	false	false	false	false	false	false	false	false	false	true	false	false	0.477919	6.804388	6	3	82.298861	false	false	false	false	true	false
OV_SAMPLE_00039	Southern_Africa	55.4	50-64	Clear_cell	IV	3	Resistant	MSS	0.104358	5.183449	false	false	false	false	false	true	false	false	false	false	false	false	false	0.318551	4.732227	3	4	30.536999	false	true	false	false	false	false
OV_SAMPLE_00040	East_Africa	45	35-49	Other	I	3	Sensitive	MSS	0.111063	4.48415	false	false	false	false	false	false	false	true	false	false	false	false	false	0.31317	5.953465	5	5	25.944537	false	false	false	false	false	false
OV_SAMPLE_00041	Southern_Africa	34.1	<35	Endometrioid	III	3	Sensitive	MSS	0.081	2.862332	false	false	false	false	false	false	false	false	false	false	false	false	true	0.370931	3.63519	1	1	38.503744	false	false	false	false	false	false
OV_SAMPLE_00042	Southern_Africa	63.7	50-64	High_grade_serous	III	3	Resistant	MSS	0.104669	4.993129	false	false	false	false	false	false	false	false	false	false	false	false	false	0.462741	4.935983	5	5	42.953999	false	false	false	false	false	false
OV_SAMPLE_00043	East_Africa	42.2	35-49	High_grade_serous	III	3	Sensitive	MSS	0.126428	6.055465	true	false	false	false	false	true	false	false	false	false	false	false	true	0.420162	8.587592	11	3	29.772466	false	false	false	false	false	false
OV_SAMPLE_00044	Southern_Africa	68.8	65+	Endometrioid	IV	2	Sensitive	MSS	0.153147	5.772475	false	false	false	false	false	false	false	true	false	true	false	false	false	0.549307	7.296788	4	6	12.009008	false	false	false	false	true	false
OV_SAMPLE_00045	Southern_Africa	69.8	65+	Mucinous	I	3	Sensitive	MSS	0.112245	9.024623	false	false	false	false	false	false	false	false	false	false	false	false	false	0.233706	4.576084	2	1	37.180306	true	false	false	true	false	false
OV_SAMPLE_00046	East_Africa	55.2	50-64	Mucinous	IV	1	Sensitive	MSS	0.081149	7.548132	true	false	false	true	false	false	false	true	false	false	false	false	false	0.29222	2.027267	2	4	9.488255	false	false	false	false	false	false
OV_SAMPLE_00047	West_Africa	66.6	65+	High_grade_serous	III	3	Sensitive	MSS	0.115956	2.781976	true	true	false	false	false	false	false	false	false	false	false	false	false	0.500248	7.103227	9	4	55.654262	false	false	true	false	false	false
OV_SAMPLE_00048	Southern_Africa	45.3	35-49	Endometrioid	I	3	Resistant	MSS	0.156831	8.574071	true	false	false	false	false	false	false	false	false	false	false	true	false	0.197372	3.658866	4	2	32.877543	false	false	false	false	false	false
OV_SAMPLE_00049	West_Africa	37.5	35-49	High_grade_serous	I	3	Sensitive	MSS	0.152027	5.539296	true	false	false	false	false	false	true	false	false	false	false	false	false	0.364744	10.620751	5	8	65.664962	false	false	false	false	false	false
OV_SAMPLE_00050	West_Africa	65.9	65+	High_grade_serous	II	2	Sensitive	MSS	0.060238	5.958801	false	false	false	false	false	false	false	false	false	false	false	false	false	0.571027	7.195848	8	4	52.277734	false	true	false	false	false	false
OV_SAMPLE_00051	West_Africa	72.5	65+	High_grade_serous	III	2	Sensitive	MSI-H	0.668011	10.310145	true	false	false	false	false	false	false	false	false	false	false	false	false	0.665437	7.776583	8	1	68.563219	true	false	false	false	false	false
OV_SAMPLE_00052	Southern_Africa	64.7	50-64	High_grade_serous	III	1	Sensitive	MSI-L	0.425198	3.098238	true	false	false	false	false	false	false	false	false	false	false	false	false	0.597147	6.922818	7	7	55.405899	false	false	false	false	false	false
OV_SAMPLE_00053	Southern_Africa	74.9	65+	Endometrioid	II	3	Resistant	MSS	0.154749	6.477784	false	false	false	false	false	false	false	false	false	false	false	false	false	0.105988	3.025654	2	2	23.681017	false	false	false	false	false	false
OV_SAMPLE_00054	Southern_Africa	85	65+	High_grade_serous	III	3	Sensitive	MSS	0.100444	6.098078	true	false	false	false	false	false	false	false	true	false	false	false	false	0.616887	7.311161	7	2	49.239803	false	false	false	false	false	false
OV_SAMPLE_00055	Southern_Africa	63.3	50-64	High_grade_serous	II	3	Sensitive	MSS	0.080717	4.236392	true	false	false	false	false	false	false	false	false	false	false	false	false	0.417729	8.039203	10	2	44.618509	false	false	false	false	false	false
OV_SAMPLE_00056	East_Africa	56.3	50-64	Endometrioid	IV	3	Sensitive	MSS	0.076426	3.144703	true	false	false	false	false	false	true	false	false	true	false	true	false	0.163673	4.6675	6	1	12.60579	false	false	false	true	false	false
OV_SAMPLE_00057	East_Africa	34.7	<35	Clear_cell	IV	3	Sensitive	MSS	0.047891	1.900686	false	false	false	false	false	false	false	false	false	false	false	false	false	0.298125	7.02932	3	3	26.468456	false	false	false	true	false	false
OV_SAMPLE_00058	West_Africa	37	35-49	Other	II	2	Resistant	MSS	0.137059	4.012249	false	false	false	false	false	true	false	false	false	false	false	false	false	0.311829	5.434259	3	2	33.573246	false	false	false	false	false	false
OV_SAMPLE_00059	West_Africa	64.8	50-64	High_grade_serous	IV	2	Resistant	MSS	0.133022	2.366937	true	false	false	false	false	false	false	false	false	false	false	false	false	0.643113	6.84368	7	5	41.254102	false	true	false	false	false	false
OV_SAMPLE_00060	Southern_Africa	68.8	65+	High_grade_serous	I	3	Resistant	MSS	0.078794	6.922245	true	true	false	false	false	false	false	false	false	false	false	false	false	0.498077	7.148036	7	3	44.501293	true	true	false	false	false	false
OV_SAMPLE_00061	East_Africa	63.5	50-64	Endometrioid	III	3	Sensitive	MSS	0.084323	3.315603	false	false	false	false	false	false	false	false	true	false	false	false	false	0.290683	2.846345	1	4	37.516146	false	false	false	true	false	false
OV_SAMPLE_00062	East_Africa	40.1	35-49	High_grade_serous	III	2	Sensitive	MSS	0.145317	4.012127	true	false	false	true	false	false	false	true	false	false	true	false	true	0.561589	7.616547	6	3	57.438772	true	false	false	false	false	false
OV_SAMPLE_00063	Southern_Africa	47.1	35-49	High_grade_serous	III	1	Sensitive	MSS	0.069688	6.50033	true	false	false	false	false	false	false	false	false	false	false	false	false	0.621725	4.037575	8	4	54.8748	false	false	false	true	false	false
OV_SAMPLE_00064	Southern_Africa	45.6	35-49	Mucinous	I	3	Sensitive	MSS	0.181345	5.185566	false	false	false	false	false	false	false	false	false	false	false	false	false	0.246912	4.481553	2	1	33.794417	false	false	false	false	false	false
OV_SAMPLE_00065	East_Africa	55.9	50-64	High_grade_serous	IV	3	Sensitive	MSS	0.145135	2.045814	true	false	false	false	false	false	false	false	false	false	true	false	false	0.693388	7.805589	10	2	24.431712	false	false	false	false	true	true
OV_SAMPLE_00066	East_Africa	40.2	35-49	High_grade_serous	IV	2	Sensitive	MSS	0.12422	5.688179	true	false	false	false	false	false	false	false	false	false	false	false	false	0.377339	9.389858	12	2	62.053675	true	false	false	false	false	true
OV_SAMPLE_00067	East_Africa	47.4	35-49	High_grade_serous	III	3	Sensitive	MSS	0.079109	3.969727	false	false	false	false	false	false	false	false	false	false	false	false	false	0.396559	9.527596	7	6	34.844409	false	false	false	false	false	false
OV_SAMPLE_00068	West_Africa	56.3	50-64	High_grade_serous	I	2	Sensitive	MSS	0.018001	4.129461	true	false	false	false	false	false	false	false	false	false	false	false	false	0.484075	8.510513	13	9	40.94027	false	false	false	false	false	false
OV_SAMPLE_00069	East_Africa	39.2	35-49	High_grade_serous	IV	3	Sensitive	MSS	0.148534	4.958279	true	false	false	false	false	false	false	false	false	false	false	false	false	0.511957	7.26363	9	5	29.402666	false	false	false	false	false	false
OV_SAMPLE_00070	West_Africa	50.7	50-64	Endometrioid	I	3	Sensitive	MSS	0.147914	5.110114	true	false	false	true	false	false	false	false	false	false	false	true	false	0.274126	4.289858	5	3	40.645085	false	false	false	false	false	false
OV_SAMPLE_00071	East_Africa	46.7	35-49	High_grade_serous	III	3	Sensitive	MSS	0.178733	3.465877	true	false	false	false	false	false	true	false	true	false	false	false	false	0.643855	8.449093	7	4	35.287311	false	false	false	false	false	false
OV_SAMPLE_00072	Central_Africa	55.5	50-64	High_grade_serous	III	3	Sensitive	MSS	0.0684	3.272709	true	false	false	false	false	false	false	false	false	false	false	false	false	0.427963	8.555254	4	5	41.801336	false	true	false	false	false	false
OV_SAMPLE_00073	West_Africa	55.1	50-64	High_grade_serous	III	3	Sensitive	MSS	0.028213	4.353186	true	false	false	false	false	false	false	false	false	false	false	true	false	0.373593	11.403376	7	5	44.220742	true	false	false	false	false	true
OV_SAMPLE_00074	West_Africa	58.4	50-64	Mucinous	III	1	Resistant	MSS	0.132154	5.133483	false	false	false	false	false	false	false	false	false	false	false	false	false	0.30309	4.076644	3	2	33.581105	false	true	false	false	false	false
OV_SAMPLE_00075	West_Africa	65.6	65+	High_grade_serous	II	3	Resistant	MSS	0.199715	4.319137	false	false	false	false	false	false	false	false	false	false	false	false	false	0.428813	13.665037	5	1	35.785857	false	false	false	false	false	false
OV_SAMPLE_00076	West_Africa	65.1	65+	High_grade_serous	III	2	Sensitive	MSS	0.118077	2.480611	true	false	true	false	true	false	true	false	true	false	true	false	false	0.432932	8.709577	10	1	81.381506	false	false	false	false	false	false
OV_SAMPLE_00077	Southern_Africa	68.9	65+	High_grade_serous	IV	3	Sensitive	MSS	0.130298	5.542982	true	true	false	false	false	false	false	false	false	false	false	false	false	0.577975	8.247632	4	0	68.317136	false	false	false	false	false	false
OV_SAMPLE_00078	East_Africa	50	35-49	High_grade_serous	IV	3	Resistant	MSI-L	0.485991	1.568165	true	false	false	false	false	true	true	false	false	false	false	false	false	0.425881	12.6828	7	3	33.73566	false	false	false	false	false	false
OV_SAMPLE_00079	Southern_Africa	35.6	35-49	High_grade_serous	I	2	Sensitive	MSS	0.071393	4.143587	false	false	false	false	false	false	false	false	false	false	false	false	false	0.570535	5.647958	5	2	88.470199	false	false	false	false	false	true
OV_SAMPLE_00080	Southern_Africa	59.7	50-64	High_grade_serous	IV	3	Sensitive	MSI-L	0.333581	4.534279	true	false	false	false	false	true	false	false	false	false	false	false	false	0.317295	7.115653	8	6	47.020339	false	true	false	false	false	false
OV_SAMPLE_00081	East_Africa	40.5	35-49	High_grade_serous	III	3	Resistant	MSS	0.055223	4.739769	true	false	false	false	false	false	false	false	false	false	false	false	false	0.30239	6.748891	7	7	35.448393	false	false	false	false	false	false
OV_SAMPLE_00082	Southern_Africa	73.7	65+	High_grade_serous	I	3	Resistant	MSS	0.123755	5.819303	true	false	false	false	false	false	false	false	false	false	false	false	false	0.639602	5.706993	3	2	34.690239	false	false	false	false	false	false
OV_SAMPLE_00083	West_Africa	38.9	35-49	High_grade_serous	IV	3	Sensitive	MSS	0.062199	7.144896	true	false	false	false	false	false	true	false	true	false	false	false	false	0.366247	7.805462	10	5	53.477557	false	false	false	true	false	true
OV_SAMPLE_00084	West_Africa	47.5	35-49	Mucinous	II	1	Sensitive	MSS	0.03859	5.986256	false	false	false	false	false	false	true	true	false	false	false	false	false	0.297741	5.020246	3	0	26.045905	false	false	false	false	false	false
OV_SAMPLE_00085	West_Africa	54.9	50-64	Other	II	2	Sensitive	MSS	0.178791	7.162259	false	false	false	false	false	false	false	false	false	false	false	false	false	0.229745	4.677996	2	4	22.771244	false	false	false	false	false	true
OV_SAMPLE_00086	Southern_Africa	65.8	65+	Clear_cell	I	1	Sensitive	MSS	0.074943	1.938344	false	false	false	false	false	false	false	false	false	false	false	false	false	0.47119	5.934705	1	4	27.995357	false	false	false	false	false	false
OV_SAMPLE_00087	East_Africa	55.1	50-64	High_grade_serous	IV	3	Resistant	MSS	0.085604	3.914085	true	false	false	false	false	false	false	false	true	false	false	false	false	0.387253	8.134607	8	7	50.05273	false	false	false	false	true	false
OV_SAMPLE_00088	West_Africa	69.7	65+	High_grade_serous	III	3	Sensitive	MSS	0	3.782615	true	false	false	false	false	false	false	false	false	false	false	false	false	0.292663	8.490958	3	2	53.229009	false	false	false	false	false	false
OV_SAMPLE_00089	East_Africa	56.5	50-64	High_grade_serous	IV	3	Resistant	MSS	0.107183	6.839563	true	false	false	false	false	false	false	false	false	false	false	false	true	0.524019	8.708011	6	9	43.937523	false	false	true	true	false	false
OV_SAMPLE_00090	West_Africa	26.7	<35	High_grade_serous	III	3	Sensitive	MSS	0.053849	3.61845	true	true	false	false	false	true	false	false	false	false	false	false	false	0.472161	11.57702	6	4	40.826277	false	true	false	false	false	false
OV_SAMPLE_00091	Southern_Africa	65.8	65+	Endometrioid	III	3	Resistant	MSS	0.151756	2.656042	false	false	false	false	false	true	false	false	false	true	false	false	false	0.250631	3.500367	2	0	33.993843	false	false	false	false	false	false
OV_SAMPLE_00092	East_Africa	79.1	65+	High_grade_serous	III	2	Sensitive	MSS	0.090911	4.852675	false	false	false	false	false	false	false	false	true	false	false	true	false	0.460501	7.967007	5	4	52.036282	false	false	false	true	true	false
OV_SAMPLE_00093	East_Africa	61.3	50-64	High_grade_serous	I	2	Resistant	MSS	0.105117	2.869519	true	false	false	false	false	false	false	false	false	false	false	false	false	0.402567	7.160011	10	4	43.90523	false	false	false	false	false	false
OV_SAMPLE_00094	East_Africa	63.8	50-64	High_grade_serous	IV	2	Resistant	MSS	0.012805	7.130978	true	false	false	true	false	false	false	false	false	false	true	true	false	0.422027	4.435492	5	6	40.038399	false	false	false	false	false	false
OV_SAMPLE_00095	Southern_Africa	57.5	50-64	High_grade_serous	IV	3	Resistant	MSS	0.108176	3.132173	true	false	false	false	false	false	false	false	true	false	false	false	false	0.535001	8.791266	6	7	59.035574	true	true	false	false	false	true
OV_SAMPLE_00096	East_Africa	34.3	<35	Endometrioid	I	3	Sensitive	MSS	0.146505	2.614669	false	false	false	false	false	false	false	false	false	false	false	false	false	0.327229	5.636494	3	4	33.814259	false	false	false	false	false	false
OV_SAMPLE_00097	West_Africa	47.9	35-49	High_grade_serous	IV	2	Sensitive	MSS	0.156388	4.073282	true	true	false	false	false	false	false	false	false	false	false	false	false	0.436124	7.002369	6	7	44.386697	true	false	true	false	false	false
OV_SAMPLE_00098	West_Africa	38.7	35-49	High_grade_serous	III	3	Sensitive	MSS	0.188883	3.805149	true	false	false	false	true	false	false	false	false	false	false	false	false	0.544192	10.378048	6	5	66.35163	false	false	false	false	false	false
OV_SAMPLE_00099	Central_Africa	58.9	50-64	High_grade_serous	II	2	Resistant	MSS	0.128838	4.830303	true	false	false	false	false	false	false	false	false	false	false	false	false	0.534585	9.863489	6	4	38.835432	true	false	false	false	false	false

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Ovarian Cancer Somatic Mutations (Synthetic)

Dataset owner: Electric Sheep Africa
Dataset type: Synthetic ovarian cancer somatic mutations (drivers, CNV, MSI, HRD, platinum response)
Populations: Ovarian cancer patients from sub-Saharan Africa (modeled cohorts)
Version: 1.0.0
License: CC-BY-NC-4.0

1. Dataset Description

This dataset provides synthetic somatic mutation profiles for 30,000 ovarian tumors, with a focus on high-grade serous ovarian carcinoma (HGSOC) but including endometrioid, clear cell, mucinous, and other subtypes.

The dataset encodes:

Per-sample driver mutation footprint (TP53, BRCA1/2, NF1, RB1, PTEN, PIK3CA, KRAS, ARID1A, CTNNB1, CDK12, ATM, ATR)
Copy number variation (CNV) burden and key focal events (e.g., CCNE1, MYC, ERBB2 amplifications; PTEN, RB1, NF1 deletions)
HRD-like score approximating homologous recombination deficiency patterns
Microsatellite instability (MSI) status and score
A simplified platinum_response label derived from HRD/BRCA and CNV features

All records are fully synthetic and parameterized using published ovarian cancer genomics studies (TCGA and others). No real patient-level data are used.

Important: This dataset contains no real patient data. It is derived entirely from literature-based distributions and internal coherence rules.

2. Intended Use

This dataset is intended for:

Method development for somatic mutation–based risk models and response prediction
Benchmarking algorithms for driver calling, HRD scoring, and CNV-aware modeling
Educational use in ovarian cancer genomics and precision oncology

Not intended for clinical decision-making or individual patient stratification.

3. Cohort Design

3.1 Regions

West_Africa
East_Africa
Southern_Africa
Central_Africa

3.2 Sample Size & Demographics

Total samples: 30,000 synthetic ovarian tumors
Age range: 25–85 years, with most samples between 50–70
Age groups: <35, 35-49, 50-64, 65+

3.3 Histologic Subtypes

High_grade_serous (dominant subtype)
Endometrioid
Clear_cell
Mucinous
Other

The subtype mix is calibrated to approximate published distributions, with ~75% HGSOC.

3.4 Stage and Grade

stage ∈ {I, II, III, IV} (enriched for advanced stage III/IV)
grade ∈ {1, 2, 3} (enriched for high-grade tumors)

4. Somatic Mutations, CNV, and MSI

4.1 Driver Mutation Flags

Per-sample boolean flags indicate presence of at least one somatic variant in the gene:

TP53_mut
BRCA1_mut
BRCA2_mut
NF1_mut
RB1_mut
PTEN_mut
PIK3CA_mut
KRAS_mut
ARID1A_mut
CTNNB1_mut
CDK12_mut
ATM_mut
ATR_mut

Mutation prevalences are tuned by histologic subtype (e.g., TP53 enriched in HGSOC; PIK3CA/ARID1A/KRAS enriched in endometrioid/clear cell/mucinous).

4.2 Tumor Mutational Burden (TMB)

tmb_mut_per_mb – Tumor mutational burden (mutations per Mb) with modest elevation in MSI-H cases.

4.3 Copy Number Variation and HRD

Global CNV features:

cnv_burden_fraction_genome_altered
aneuploidy_score
n_focal_amplifications
n_focal_deletions
hrd_score – HRD-like score (0–100)

Key focal events:

CCNE1_amp, MYC_amp, ERBB2_amp
PTEN_del, RB1_del, NF1_del

HGSOC samples are enriched for high CNV burden, high aneuploidy, and higher HRD scores relative to non-HGSOC subtypes.

4.4 Microsatellite Instability (MSI)

msi_status ∈ {MSS, MSI-L, MSI-H}
msi_score – continuous score (0–1) with higher values in MSI-L/MSI-H

MSI-H is rare (a few percent of tumors) but associated with higher TMB.

4.5 Platinum Response

platinum_response ∈ {Sensitive, Resistant}

This label is simulated using a simple logistic model where BRCA1/2 mutations, high HRD score, and absence of CCNE1 amplification increase the probability of sensitivity.

5. Main File Schema

5.1 `ovarian_somatic_data.csv`

Rows: 30,000 samples
Columns (core variables):

Clinical & context:

sample_id – Synthetic ID (OV_SAMPLE_00000 ...)
region – {West_Africa, East_Africa, Southern_Africa, Central_Africa}
age – Age in years
age_group – {<35, 35-49, 50-64, 65+}
histologic_subtype – {High_grade_serous, Endometrioid, Clear_cell, Mucinous, Other}
stage – {I, II, III, IV}
grade – {1, 2, 3}
platinum_response – {Sensitive, Resistant}

Molecular features:

msi_status, msi_score
tmb_mut_per_mb
Driver mutation flags listed above
CNV burden and focal CNV flags listed above
hrd_score

6. Data Access & Files

Main Dataset (root)

ovarian_somatic_data.csv – 30,000 × ~35 variables (main table, CSV)
ovarian_somatic_data.parquet – Same table in Parquet format for efficient loading.

Auxiliary Tables (local only)

The following tables are generated by the scripts but not distributed as separate files in this repository, to keep streaming simple:

somatic_variants.csv – Long-format somatic variants per sample (gene-level details)
cnv_segments.csv – Long-format CNV segments per sample

Key behaviors of these tables (driver footprints, CNV patterns) are summarized in the main table and the validation report.

7. Generation & Validation (Summary)

The dataset was generated using the same GENOMICS Synthetic Data Playbook principles as other projects in this repository:

Domain specification – Identify key ovarian cancer drivers, CNV patterns, MSI prevalence, and HRD behavior.
Literature-informed parameters – Approximate driver frequencies, CNV burden, HRD, and MSI from TCGA and other ovarian genomics studies (see local docs/LITERATURE_INVENTORY.csv).
Configuration – Encode parameters in ovarian_somatic/configs/ovarian_somatic_config.yaml.
Generation – Use scripts/generate_ovarian_somatic.py to simulate 30,000 tumors and auxiliary tables.
Validation – Use scripts/validate_ovarian_somatic.py to run structured checks on distributions, CNV/HRD coherence, MSI/TMB patterns, and missingness.

7.1 Validation Status

Validation run on: ovarian_somatic/output/ovarian_somatic_data.csv
Checks include:
- Region and subtype distributions vs config
- Driver mutation frequencies vs targets
- CNV burden and HRD score vs histologic subtype
- MSI prevalence vs config and TMB shift in MSI-H
- Platinum response enrichment in HRD-high samples
- Missingness in key variables

The current validation report indicates Overall Status: PASS.

8. Example Usage

8.1 Load with pandas

import pandas as pd

df = pd.read_csv("ovarian_somatic_data.csv")
print(df.shape)
print(df.head())

8.2 Load with `datasets` (Hugging Face)

from datasets import load_dataset

ov = load_dataset("electricsheepafrica/ovarian-somatic-mutations")
df = ov["train"].to_pandas()

print(f"Samples: {len(df)}")
print(f"Columns: {len(df.columns)}")

8.3 CNV burden vs histologic subtype

cnv = df.groupby("histologic_subtype")["cnv_burden_fraction_genome_altered"].describe()
print(cnv)

8.4 Platinum response vs HRD status

hrd_high = df["hrd_score"] > 42

sens_high = (df.loc[hrd_high, "platinum_response"] == "Sensitive").mean()
sens_low = (df.loc[~hrd_high, "platinum_response"] == "Sensitive").mean()

print("Platinum-sensitive fraction (HRD-high):", sens_high)
print("Platinum-sensitive fraction (HRD-low):", sens_low)

9. Ethical & Appropriate Use

9.1 Appropriate Uses ✅

Method development and benchmarking in somatic mutation modeling
Educational use in ovarian cancer genomics and HRD modeling
Health equity and disparity analysis using synthetic data

9.2 Inappropriate Uses ❌

Clinical decision-making for individual patients
Real-world prognosis or treatment selection
Insurance, employment, or financial decisions

This dataset is synthetic and must not be used as a substitute for real clinical or genomic data in patient care.

10. License

License: CC-BY-NC-4.0
Commercial use: Not permitted without explicit permission.

11. Citation

Electric Sheep Africa (2025).
Ovarian Cancer Somatic Mutations (Synthetic Dataset).
Generated using literature-informed synthetic data methods.
Hugging Face Datasets. Version 1.0.0.