Datasets:

dwb2023
/

pmc_35559673_table_s1

GENE_CLONE stringlengths 22 36	GENE stringlengths 1 15	WT_T0_XF498 int64 0 2.05k	WT_T21A_XF498 int64 0 10.2k	WT_T21B_XF498 int64 0 4.23k	LKB1 KO_T0_XF498 int64 0 1.51k	LKB1 KO_T21A_XF498 int64 0 2.79k	LKB1 KO_T21B_XF498 int64 0 4.76k	PTEN KO_T0_XF498 int64 0 4.69k	PTEN KO_T21A_XF498 int64 0 3.99k	PTEN KO_T21B_XF498 int64 0 3.39k	VHL KO_T0_XF498 int64 0 4.22k	VHL KO_T21A_XF498 int64 0 2.61k	VHL KO_T21B_XF498 int64 0 2.8k	WT_T0_XF646 int64 0 1.28k	WT_T21A_XF646 int64 0 2.47k	WT_T21B_XF646 int64 0 1.66k	CDH1 KO_T0_XF646 int64 0 961	CDH1 KO_T21A_XF646 int64 0 5.19k	CDH1 KO_T21B_XF646 int64 0 1.25k	NF2 KO_T0_XF646 int64 0 1.03k	NF2 KO_T21A_XF646 int64 0 2.94k	NF2 KO_T21B_XF646 int64 0 5.06k	BAP1 KO_T0_XF646 int64 0 1.15k	BAP1 KO_T21A_XF646 int64 0 2.3k	BAP1 KO_T21B_XF646 int64 0 1.75k	WT_T0_XF804 int64 0 832	WT_T21A_XF804 int64 0 1.89k	WT_T21B_XF804 int64 0 1.97k	ARID1A KD_T0_XF804 int64 0 885	ARID1A KD_T21A_XF804 int64 0 3.33k	ARID1A KD_T21B_XF804 int64 0 1.85k	PBRM1 KO_T0_XF804 int64 0 879	PBRM1 KO_T21A_XF804 int64 0 5.42k	PBRM1 KO_T21B_XF804 int64 0 6.55k	WT_T0_XF821 int64 0 1.23k	WT_T21A_XF821 int64 0 1.97k	WT_T21B_XF821 int64 0 1.89k	KEAP1 KO_T0_XF821 int64 0 1.32k	KEAP1 KO_T21A_XF821 int64 0 1.61k	KEAP1 KO_T21B_XF821 int64 0 2.31k	NF1 KO_T0_XF821 int64 0 1.26k	NF1 KO_T21A_XF821 int64 0 1.98k	NF1 KO_T21B_XF821 int64 0 5.44M	RB1 KO_T0_XF821 int64 0 1.18k	RB1 KO_T21A_XF821 int64 0 2.22k	RB1 KO_T21B_XF821 int64 0 1.89k	TP53 KO_T0_XF821 int64 0 1.29k	TP53 KO_T21A_XF821 int64 0 1.6k	TP53 KO_T21B_XF821 int64 0 2.76k	TP53BP1 KO_T0_XF443 int64 0 4.89k	TP53BP1 KO_T21A_XF443 int64 0 5.01k	TP53BP1 KO_T21B_XF443 int64 0 5.51k
A1BG_ACTGGCGCCATCGAGAGCCA	A1BG	121	38	50	85	23	49	90	72	19	99	81	82	104	54	34	68	54	71	78	86	147	99	91	49	59	79	46	60	46	109	42	51	28	68	109	22	83	28	46	68	9	48	77	23	11	68	114	47	91	103	113
A1BG_CAAGAGAAAGACCACGAGCA	A1BG	540	305	302	422	160	227	449	347	146	406	393	394	362	299	242	321	211	226	337	188	407	332	301	152	260	245	233	249	176	145	222	164	198	164	137	90	155	89	67	136	100	84	123	135	77	134	63	91	220	266	226
A1BG_GCTCAGCTGGGTCCATCCTG	A1BG	490	237	357	363	204	99	408	315	256	397	449	439	424	92	344	297	317	194	339	284	321	314	170	146	301	143	203	252	167	198	238	125	250	226	128	140	257	109	193	253	132	166	248	141	164	269	150	208	525	463	382
A1BG_GTCGAGCTGATTCTGAGCGA	A1BG	257	175	191	212	55	227	224	235	237	230	98	346	175	84	55	126	77	82	119	77	79	120	106	93	122	229	115	103	98	95	118	48	26	63	35	21	68	46	22	45	39	28	51	34	74	59	53	86	258	180	187
A1CF_AGTTATGTTAGGTATACCCG	A1CF	443	201	250	319	168	73	389	306	141	314	131	83	343	187	136	283	70	63	318	243	270	255	284	151	210	180	123	195	77	124	204	114	118	295	249	337	287	355	130	267	169	227	274	128	202	322	279	224	752	551	515
A1CF_ATGACTCTCATACTCCACGA	A1CF	240	182	196	240	153	102	249	242	138	191	49	9	200	64	76	174	154	89	183	51	212	163	127	90	107	85	101	118	62	85	121	110	53	203	114	213	197	116	127	231	165	71	183	136	73	231	71	129	499	227	209
A1CF_GGTGCAGCATCCCAACCAGG	A1CF	242	123	90	154	46	62	193	108	155	162	30	47	163	91	126	132	255	91	119	66	123	124	75	64	105	42	27	110	57	49	100	131	95	148	64	88	188	136	159	110	77	71	136	122	71	146	109	182	232	67	183
A1CF_TGCGCTGGACCAGTGCGCGG	A1CF	213	55	68	139	55	28	200	79	88	163	63	53	88	47	58	65	17	39	84	46	66	80	51	40	98	26	49	93	45	61	111	47	13	205	29	35	135	147	54	166	62	14	128	102	48	165	286	141	329	37	150
A2M_AACAGCCACACTCACAGCGA	A2M	342	26	86	231	93	136	276	156	116	276	17	32	183	54	155	149	57	50	188	99	274	177	166	47	132	101	75	125	94	87	141	54	94	232	116	157	230	69	88	172	74	68	204	164	138	200	119	114	479	342	362
A2M_AACTCACCAACTCATTCAGG	A2M	209	119	82	125	27	10	171	127	57	175	18	39	187	52	77	121	71	23	150	49	106	141	37	62	118	57	26	84	4	18	93	58	29	144	124	102	138	55	43	99	121	81	160	47	40	187	88	141	192	44	93
A2M_GAAGAACCAGACTTGGATGA	A2M	333	161	178	238	1	90	325	284	182	306	121	81	236	84	163	191	147	200	206	212	110	225	117	56	181	96	102	154	104	134	170	59	318	213	154	159	252	126	117	213	74	61	190	53	95	264	106	129	256	133	212
A2M_TAAGAAGCGGACCACAGTGA	A2M	808	412	175	558	271	204	649	412	317	503	217	194	560	205	407	435	206	344	450	163	207	486	217	339	347	245	281	401	118	317	371	142	287	496	333	350	444	162	123	373	355	152	428	132	216	524	237	358	1,017	375	387
A2ML1_AAGGTTCTAATTCAGAGGCA	A2ML1	416	236	270	302	204	96	399	392	213	317	196	130	332	270	225	242	285	186	264	439	277	275	278	256	194	111	174	188	176	113	192	139	235	360	275	251	281	321	173	237	95	106	264	122	195	277	227	353	590	262	288
A2ML1_ATAGGGCCAACATTCCTAGA	A2ML1	178	248	144	98	257	135	148	272	174	178	190	228	209	237	440	151	279	410	172	289	238	154	356	182	108	228	56	105	190	194	92	107	158	99	85	118	81	104	83	75	70	77	72	98	83	69	118	150	75	90	106
A2ML1_CAAACAAACCTTCTGAACGG	A2ML1	537	451	214	405	164	172	462	422	470	440	422	153	301	229	125	249	101	116	228	63	200	265	352	212	237	168	107	224	158	151	211	179	174	266	168	97	256	111	128	200	274	196	230	236	183	228	250	271	540	289	430
A2ML1_TGGAACGAAGTTGCTATCCA	A2ML1	385	308	155	281	93	106	352	217	196	311	351	408	344	220	268	252	226	121	297	225	203	290	284	314	223	147	89	207	204	120	212	132	96	329	213	212	295	204	137	276	120	120	247	134	171	266	214	286	589	182	236
A3GALT2_AGACAGCAGAACCTCACCAT	A3GALT2	479	320	292	358	259	265	393	363	289	380	263	503	363	324	319	300	382	164	331	188	304	325	330	241	216	240	219	216	245	215	195	202	162	261	147	165	200	175	172	175	115	59	164	192	228	175	227	188	429	351	334
A3GALT2_AGCTGGGACATTGTGGCCGA	A3GALT2	387	645	271	376	421	239	370	372	300	370	575	167	241	214	224	167	209	205	172	164	298	226	174	174	167	171	216	164	187	207	167	302	278	346	354	334	283	208	382	333	314	312	263	214	364	382	379	315	1,077	1,184	1,223
A3GALT2_CCTGGAAGAGAATCTTCTGG	A3GALT2	220	81	134	142	13	36	187	76	58	173	25	19	210	60	86	154	57	9	141	14	69	198	68	76	132	89	48	123	41	34	142	40	15	94	48	32	137	57	118	108	43	41	106	60	111	112	61	102	123	19	56
A3GALT2_GCTGACGGCGCACTGTGCGG	A3GALT2	579	422	173	361	227	294	450	346	287	483	233	589	267	217	243	227	247	184	216	343	324	222	153	215	219	335	195	240	210	163	236	186	290	354	483	375	303	456	264	321	322	614	339	448	331	389	446	580	973	395	802
A4GALT_CTGATGAAAGGGCTTCCGGG	A4GALT	644	419	577	406	411	328	511	473	368	448	543	1,186	272	344	406	211	550	321	262	205	387	221	274	312	234	375	231	252	176	328	232	293	280	452	283	371	408	398	502	398	228	327	360	446	547	349	293	675	487	822	740
A4GALT_GAATGTCCAGATGCTCCCGC	A4GALT	639	813	832	485	478	499	605	798	495	548	668	595	345	371	492	270	621	322	281	177	483	301	345	309	263	290	471	276	397	204	263	307	255	378	620	526	388	518	277	541	352	172	412	702	339	347	515	777	1,203	1,348	1,681
A4GALT_GTGGCAACGCCTCTCTGCCC	A4GALT	363	157	111	245	197	98	331	144	177	222	286	120	237	124	146	160	81	15	175	271	224	203	151	84	151	98	104	153	94	63	131	65	113	278	116	168	250	162	142	213	71	182	217	88	88	234	115	185	717	164	282
A4GALT_TGTCCCGGAACAGCTCCCGC	A4GALT	875	484	395	658	354	472	805	692	429	682	555	510	492	258	245	364	315	123	429	289	208	403	459	171	364	251	153	368	96	162	374	165	142	429	188	186	349	314	302	320	239	202	354	156	241	338	371	432	1,288	495	506
A4GNT_CAGAGAAGAGGACATGCGGA	A4GNT	486	461	581	323	726	67	405	469	347	433	155	362	363	337	295	264	383	287	254	168	152	254	138	163	227	298	341	242	204	234	229	190	166	407	282	227	291	231	207	323	309	304	306	243	250	296	249	421	531	266	558
A4GNT_GAAACACAATGCCACGTCTG	A4GNT	569	559	634	374	448	424	527	697	259	415	453	416	310	354	414	283	633	420	270	214	348	238	382	354	220	387	208	215	451	219	216	355	309	318	435	352	319	418	377	314	548	256	283	530	472	303	331	351	894	632	708
A4GNT_TAAACTTGAAGACTTCCAGG	A4GNT	393	425	301	267	170	130	314	415	157	320	426	510	276	218	300	207	351	198	221	76	189	239	311	288	171	223	136	165	341	221	142	209	158	126	130	126	97	112	121	88	70	80	96	81	91	123	128	82	139	90	100
A4GNT_TAGAGGAAGCAACACACTGG	A4GNT	575	182	233	403	257	176	515	411	342	470	102	165	359	257	209	309	291	198	277	78	356	351	179	134	233	183	193	276	123	195	255	129	256	364	256	206	376	251	182	301	110	142	386	220	134	358	279	301	675	339	237
AAAS_ATATGAGCACAATAACGAGC	AAAS	139	37	28	72	46	13	101	72	50	113	61	82	101	14	40	68	40	3	79	90	120	67	100	60	60	3	3	54	26	57	59	34	66	71	54	33	100	31	29	71	79	2	71	9	18	89	1	41	170	62	22
AAAS_CCACACCAACAAGTTTGCAG	AAAS	226	206	82	135	139	72	187	92	126	125	121	123	134	67	51	96	77	51	116	99	73	111	96	82	99	29	40	93	30	17	67	12	102	123	207	114	125	64	76	75	42	51	117	115	54	181	111	85	235	118	98
AAAS_GGGTGAAGACGGCATCCGGC	AAAS	180	145	175	135	230	154	170	99	181	131	78	115	83	58	79	87	69	50	59	48	99	78	120	133	68	126	69	48	83	108	63	152	130	63	73	95	71	84	58	68	28	19	57	57	138	56	135	91	144	208	295
AAAS_TGAAGGCAGTTCTTGTGCCA	AAAS	496	300	284	387	223	119	458	356	292	426	172	150	309	252	150	213	152	79	240	186	200	268	194	155	218	147	166	202	67	77	235	97	243	299	235	209	280	178	253	241	213	144	293	210	242	326	182	304	1,230	479	485
AACS_AAGGTCTATGTTCTCTCTGG	AACS	301	302	156	296	54	85	318	259	205	286	215	205	224	195	95	179	195	62	204	55	55	184	117	109	164	86	38	158	53	146	172	111	203	201	150	52	239	160	154	229	159	92	201	349	85	203	106	172	541	590	909
AACS_AATATGACTCAACGGACCAA	AACS	409	396	274	298	96	142	339	251	254	314	368	411	312	297	265	237	191	217	266	157	377	256	241	98	178	262	193	173	208	167	183	151	196	293	215	273	260	226	223	234	386	152	257	184	266	261	184	295	371	335	381
AACS_GCAGATGGACCGCTTCCGGG	AACS	358	321	240	208	335	313	289	241	211	263	118	130	143	113	59	107	69	81	130	48	92	127	130	42	144	143	185	133	109	276	158	164	234	10	7	1	6	3	2	6	15	7	9	4	6	10	3	7	36	13	20
AACS_TGGCAAAGAGCACAACCACA	AACS	191	250	240	127	155	155	132	288	141	125	226	337	177	199	198	144	237	156	172	123	200	145	235	222	82	199	146	84	192	86	79	114	224	88	76	87	100	169	121	83	133	60	68	80	93	76	94	129	157	190	187
AADAC_AAGTCTGAAGCACTAAGAAG	AADAC	147	110	68	95	114	84	119	130	101	126	73	70	146	79	122	109	126	103	135	93	78	112	141	81	66	80	112	82	143	49	79	61	75	107	161	238	105	186	111	69	54	36	98	32	87	105	72	106	69	114	96
AADAC_GTTGTCATCAGCCAACAAAG	AADAC	112	136	225	64	97	195	111	104	155	85	42	163	109	98	133	66	126	54	106	48	204	76	264	142	61	136	79	54	174	189	56	62	62	101	113	85	73	117	67	79	132	45	73	53	52	80	38	208	57	30	60
AADAC_TTCCAGACAACATGTACCTG	AADAC	437	357	539	359	247	285	394	517	300	320	168	308	373	342	535	303	373	366	347	411	380	297	328	332	241	192	249	219	184	323	218	316	168	375	463	322	273	319	317	227	193	292	254	489	333	309	212	654	781	643	680
AADAC_TTTCTGGAGATAGTGCAGGA	AADAC	377	719	476	287	408	409	337	477	497	360	794	376	208	369	503	198	500	506	228	116	506	197	145	220	159	504	382	161	284	384	170	186	291	351	349	346	279	405	398	266	348	374	264	458	357	225	242	552	115	231	127
AADACL2_AAAGAAAGTCAGAAACCCGA	AADACL2	93	115	65	62	42	70	67	99	68	58	65	150	87	68	63	67	76	135	64	21	82	81	190	83	55	61	39	35	65	100	52	64	42	72	75	60	63	90	31	73	42	5	50	59	140	50	63	81	54	70	74
AADACL2_ATGCAAGTCTTACTTTACCC	AADACL2	248	367	311	209	225	285	298	332	184	194	208	284	284	279	259	188	206	126	229	409	265	236	307	198	140	241	171	154	155	130	153	163	318	224	195	285	181	149	276	141	526	215	190	321	291	174	179	341	447	721	708
AADACL2_CAAGGATGAAGCACTTCCCT	AADACL2	399	217	156	251	128	133	285	278	200	297	252	337	329	178	192	252	206	223	299	374	198	299	297	152	157	164	119	185	146	105	163	165	125	262	215	127	227	181	153	241	244	96	208	111	321	239	110	234	516	130	162
AADACL2_CGTGAGCTTATATTTCACCA	AADACL2	374	328	285	294	290	214	272	560	292	257	290	407	318	427	297	264	267	287	250	246	223	252	227	278	173	237	127	145	210	204	175	162	178	201	253	156	286	199	254	237	263	307	207	296	264	226	215	426	385	261	319
AADACL3_ACAAACGAGAGCATATGCCA	AADACL3	204	93	118	131	38	28	148	131	103	125	7	38	138	161	67	104	336	120	121	75	43	154	94	66	82	64	79	75	68	47	65	51	73	151	68	103	107	104	128	105	133	58	111	126	133	142	127	171	228	243	220
AADACL3_GGCATCGTGTACTACCACGG	AADACL3	277	214	274	197	102	164	265	234	252	258	240	161	104	56	112	100	54	66	132	60	166	131	246	92	92	65	95	133	112	103	82	24	69	203	134	87	145	68	106	124	103	27	182	184	115	164	85	197	457	460	258
AADACL3_TCACCCAACTGCCAGAACCA	AADACL3	432	320	531	322	408	287	383	444	324	350	269	289	351	345	392	295	481	345	255	344	250	276	338	327	228	252	186	216	223	205	207	314	175	271	223	305	333	295	204	291	231	165	304	337	266	302	349	332	538	431	377
AADACL3_TCTGCGGTGACAGTTTCGGA	AADACL3	590	677	370	416	472	390	493	686	483	514	601	380	345	302	441	284	337	275	330	160	289	298	452	457	255	249	279	277	318	176	265	154	203	13	37	32	27	38	23	44	36	11	30	40	48	33	23	32	40	103	111
AADACL4_AAGCGTCGGAGGTGCAGCGG	AADACL4	563	407	236	346	361	249	589	357	260	522	547	670	273	134	210	220	267	105	208	97	253	238	176	148	213	190	128	220	132	190	200	123	109	207	185	133	218	216	132	216	289	101	204	279	169	197	191	227	626	779	847
AADACL4_CCAAGAGTAGCACTAGCCAG	AADACL4	559	472	309	419	314	226	468	455	372	515	431	660	462	361	342	314	291	156	363	262	183	386	391	269	297	141	212	251	281	309	248	91	169	1	0	3	2	3	3	1	2	5	3	2	1	4	0	3	8	5	18
AADACL4_GCCAAGAGTAGCACTAGCCA	AADACL4	226	155	128	137	259	212	165	148	206	181	107	219	183	160	186	153	262	148	146	122	63	134	238	209	112	149	203	94	97	138	105	73	114	0	5	6	0	2	1	8	1	1	2	6	1	3	1	2	3	5	4
AADACL4_TAGAAGATGATGCCTCGCCG	AADACL4	687	456	458	474	393	260	692	535	255	628	311	611	369	346	221	298	246	100	349	125	376	310	224	197	321	338	157	281	227	150	294	158	225	348	247	223	312	246	342	289	161	30	298	358	253	270	160	301	861	304	622
AADAT_AGACACAGGGCCTTACCCAG	AADAT	745	963	875	554	557	497	677	896	650	635	819	1,032	482	550	623	382	591	668	437	645	355	381	509	533	338	689	426	339	444	439	289	388	481	597	682	552	512	580	482	348	491	263	449	640	595	492	751	822	1,062	1,622	1,505
AADAT_CAGAAGACATGAATTACGCA	AADAT	146	371	131	115	128	184	130	165	141	169	156	259	128	168	126	112	226	154	111	163	212	130	287	62	69	143	132	76	123	224	64	171	58	127	133	243	116	168	131	66	79	89	98	123	226	113	156	274	204	317	578
AADAT_GTAGCTGACATATTGAGCAG	AADAT	439	479	493	293	185	232	343	358	280	275	501	919	255	309	265	190	303	193	214	176	126	243	271	248	176	286	179	189	224	294	175	389	266	224	405	221	276	286	221	247	249	71	257	189	289	222	317	513	620	596	663
AADAT_TTAATAATGTTGCAGCCCAG	AADAT	626	770	676	422	368	457	453	580	561	447	461	651	286	443	325	218	412	304	287	423	382	257	459	370	241	449	437	228	301	216	232	300	288	388	433	435	371	620	418	345	371	244	317	616	534	346	577	564	1,010	1,611	1,171
AAED1_CACCCGCACGAACACCACCA	AAED1	369	354	485	237	200	123	329	297	265	322	289	394	277	346	296	237	571	178	269	97	312	246	288	212	198	286	265	194	272	186	189	286	259	130	149	86	150	116	109	92	92	97	99	85	108	115	97	144	213	291	441
AAED1_GACATGTTATGTCTTACCTG	AAED1	406	454	347	292	179	191	345	214	230	325	113	151	369	271	300	263	278	207	278	274	289	305	338	205	217	336	274	233	370	238	183	253	201	308	216	259	268	226	300	216	246	196	277	393	238	282	261	274	753	387	573
AAED1_GCACGAACACCACCACGGCG	AAED1	489	411	215	290	265	264	391	356	136	341	207	221	203	229	247	126	161	89	161	234	85	168	124	189	166	184	260	133	151	198	153	116	235	269	455	202	273	264	271	229	271	136	262	318	495	224	196	436	792	422	554
AAED1_GGTGAAGAAATTGCTTCCTC	AAED1	111	54	51	93	87	5	89	117	112	80	12	45	119	85	34	98	46	30	100	59	55	106	66	35	76	63	55	61	52	113	70	21	26	73	80	127	82	70	96	88	122	44	55	63	63	83	81	145	218	149	143
AAGAB_ACTGGAACAAACCATAGCAT	AAGAB	289	273	229	218	152	127	205	233	234	240	287	486	246	375	187	198	165	315	231	85	386	183	277	208	140	173	110	121	140	135	127	281	94	223	208	161	174	219	145	167	150	107	175	148	231	204	169	189	256	340	344
AAGAB_GAATTAGCCAGTCTTACCAC	AAGAB	361	419	242	252	207	215	294	262	284	337	211	278	296	268	374	203	280	91	261	261	305	293	384	157	196	309	155	176	156	232	176	150	117	229	167	207	240	200	176	221	190	108	204	296	247	303	280	295	444	640	729
AAGAB_GCAGCTGGTGACTAACGCAC	AAGAB	266	60	138	189	61	105	233	242	210	222	20	54	209	59	141	152	41	90	144	86	129	175	95	48	158	106	119	128	133	92	128	140	102	164	62	87	138	85	108	120	108	46	137	100	90	142	155	116	365	441	430
AAGAB_TAGTCCAGAGGAGTTGCCTG	AAGAB	549	643	553	394	211	294	566	658	435	568	550	456	433	276	291	279	344	251	363	171	144	351	370	328	295	402	235	303	536	235	214	588	479	388	503	572	381	487	470	373	850	221	384	395	243	414	348	705	806	747	993
AAK1_AGCACCTCGGGCCTGGGCAG	AAK1	665	388	395	507	408	224	515	534	488	567	263	466	354	172	194	325	234	104	270	135	174	270	125	232	313	336	324	289	247	204	315	128	397	368	281	417	300	259	322	250	219	318	306	276	278	304	252	402	976	724	1,168
AAK1_AGTGGCCTCGGTCATGCAAG	AAK1	249	280	298	214	412	195	242	214	203	235	390	175	214	327	356	234	200	201	241	204	241	188	379	333	129	206	117	127	218	259	145	133	254	218	299	216	201	292	203	187	267	286	153	251	608	194	280	408	365	276	348
AAK1_ATGGGAAGTGCTCATTCTGA	AAK1	336	441	411	268	386	319	289	466	314	333	479	386	305	603	402	250	423	520	263	432	511	205	711	387	182	768	385	184	252	344	165	220	282	212	425	252	291	365	272	190	517	227	247	279	474	238	306	411	339	622	641
AAK1_TCTGTACCTTCAGGTCCCGG	AAK1	543	169	178	445	212	233	516	342	188	507	179	44	305	63	144	257	69	60	245	191	153	242	87	74	252	91	112	253	67	75	219	25	134	121	57	27	115	247	65	152	82	25	144	70	83	162	84	125	312	243	340
AAMDC_AGGACTGCAAAGTATGGCCA	AAMDC	258	287	297	165	177	178	223	339	178	200	267	155	208	159	181	161	281	272	156	147	255	180	197	273	138	259	246	117	234	143	147	125	72	13	6	12	7	4	1	6	22	10	9	3	12	8	13	13	20	15	16
AAMDC_AGTGAAGGAGTATAATGCCT	AAMDC	242	225	163	159	108	267	214	192	177	187	309	307	250	202	95	179	225	216	163	313	295	212	289	312	138	166	124	124	142	90	125	114	101	156	112	192	169	125	190	130	83	129	149	82	64	182	117	161	269	175	162
AAMDC_GGACTGCAAAGTATGGCCAG	AAMDC	244	241	205	192	201	84	212	362	174	182	73	316	165	106	225	128	195	152	148	117	150	152	143	145	119	135	153	105	81	191	100	66	109	4	1	9	4	4	1	1	1	1	2	0	1	1	7	2	12	5	2
AAMDC_TGTGAAGGAAGTTGTTGAGA	AAMDC	527	448	432	389	355	341	491	580	505	454	730	733	406	501	381	288	350	326	353	411	642	326	460	426	244	407	268	244	287	245	212	376	470	363	338	352	335	394	382	396	360	423	330	398	328	344	553	397	379	495	594
AAMP_AAGAGGGCAACGAAGAGGGC	AAMP	246	154	104	173	247	165	236	213	200	207	107	95	138	76	42	109	140	169	125	95	65	132	134	41	121	107	57	78	78	52	94	55	33	200	243	150	166	189	159	159	150	95	141	88	106	148	157	226	351	122	429
AAMP_AATACCTTGGCAGTGACCGG	AAMP	884	33	21	678	0	0	813	7	22	635	0	11	434	31	34	394	12	8	392	35	2	329	13	34	400	19	11	348	0	14	298	7	9	603	45	55	516	44	43	546	38	67	491	23	55	534	52	67	1,164	96	250
AAMP_GGAGGTCTGGTCCTTTGAAG	AAMP	360	20	25	222	7	13	358	77	14	258	26	59	276	65	34	218	39	12	232	68	16	218	21	33	173	21	20	158	16	8	153	55	7	298	70	19	249	45	37	237	47	39	232	15	3	233	63	130	293	63	62
AAMP_TGGAAGCTTAGGGTCTCCAG	AAMP	454	127	233	306	190	350	359	170	278	286	124	208	299	244	130	213	106	58	239	172	311	189	417	102	217	90	110	176	73	132	188	133	115	302	132	214	292	224	120	211	173	126	255	221	91	277	219	333	580	229	109
AANAT_AAGGCGCTGACAGCGTCCTC	AANAT	122	191	208	116	28	235	105	205	148	120	32	141	110	127	90	97	258	189	111	122	24	95	254	94	86	55	74	49	83	63	60	89	74	26	97	37	23	57	105	34	5	20	34	48	55	34	46	91	81	294	335
AANAT_GAGGTTCAGCTTCCACGCCG	AANAT	268	132	220	223	368	232	214	303	270	271	439	584	110	135	205	128	361	191	118	81	58	137	304	118	90	156	79	105	110	158	118	123	163	262	217	223	195	236	172	160	167	62	175	130	223	183	123	260	607	721	687
AANAT_GCACGGCCAGCACATGCAGG	AANAT	186	82	147	103	174	183	152	183	157	131	75	189	81	158	120	89	95	58	86	272	217	87	108	84	87	226	188	65	76	145	46	106	128	111	202	150	123	157	119	83	205	200	101	173	191	94	172	151	196	176	209
AANAT_GGCGCTGACAGCGTCCTCCG	AANAT	101	105	66	46	112	51	45	91	95	71	199	111	60	140	87	64	148	119	64	68	22	54	69	84	46	149	22	41	69	52	52	68	49	0	11	10	3	7	4	5	8	2	4	5	6	7	1	5	28	32	13
AAR2_GTTCCGGTGGGACTTTGCTG	AAR2	1,029	913	575	813	834	373	935	1,111	907	900	206	510	684	487	494	534	696	381	624	334	538	583	545	518	502	388	412	457	763	453	444	320	215	752	609	695	709	789	966	614	279	340	693	891	847	678	447	653	1,460	1,151	1,224
AAR2_TAAGGAAGAAACCCATACGA	AAR2	156	39	76	126	16	80	125	200	137	106	4	0	140	52	135	136	247	26	141	47	69	125	120	93	73	33	49	83	83	104	77	33	59	148	62	69	110	76	60	91	46	22	120	164	152	137	58	80	89	19	20
AAR2_TGTCTACGAAGAAGTCAGCG	AAR2	290	316	139	234	244	148	245	400	219	279	180	79	196	177	253	179	380	223	189	205	92	174	258	152	135	200	153	168	184	269	157	102	166	212	299	164	184	287	186	112	152	54	214	375	292	197	293	285	343	145	320
AAR2_TGTGGACAAGGCTAATCCGA	AAR2	325	360	254	232	99	103	300	363	405	218	115	156	260	100	132	197	221	139	182	190	271	162	199	146	108	176	123	158	144	84	124	90	73	203	145	141	215	243	173	186	308	27	158	200	243	184	206	240	343	316	237
AARD_CAGGAGCACGGACATCCAGG	AARD	509	414	421	374	449	255	451	362	258	342	295	207	318	290	316	290	199	172	310	141	190	284	281	305	236	295	359	236	330	186	239	210	217	4	10	2	11	14	26	19	12	13	8	8	14	8	36	6	22	11	10
AARD_GAGCACGGACATCCAGGAGG	AARD	387	173	236	264	196	180	314	234	161	320	193	77	304	157	90	217	113	196	216	94	45	200	71	88	181	162	45	169	76	81	158	85	145	129	39	80	87	74	32	102	66	21	78	41	81	102	70	91	127	30	51
AARD_GCAGAGAGAGAATTTCCCAG	AARD	317	235	176	238	93	130	300	272	228	280	107	255	312	184	318	251	298	360	260	249	147	310	477	247	168	216	160	189	170	153	165	112	293	248	239	148	239	230	218	217	202	92	201	210	172	278	206	201	268	192	215
AARD_GCTGACGCGCGCCTTCCAGT	AARD	429	155	232	240	129	147	363	245	278	275	316	430	271	182	218	197	346	166	185	175	232	261	240	123	181	190	200	180	233	152	159	264	284	182	163	151	188	227	185	201	89	112	169	194	218	196	114	182	387	435	456
AARS_AGAGCCCAGCATCTCGAAGA	AARS	93	5	3	81	6	0	95	31	10	81	7	0	135	0	16	93	0	2	94	1	23	123	14	21	65	9	3	58	0	1	76	9	0	105	28	8	94	35	7	79	60	1	118	1	7	110	19	29	69	9	1
AARS_GAAGGATAACTTCTGGGAGA	AARS	241	10	25	174	38	14	193	80	79	160	30	7	159	26	91	117	36	6	137	19	42	171	60	63	104	23	44	106	23	8	103	8	22	173	72	88	178	58	62	186	63	32	177	76	35	147	54	47	329	62	52
AARS_GGCCTGACAACACAGGGCGT	AARS	257	0	15	163	4	8	184	0	0	157	0	0	123	18	31	86	95	0	86	0	21	113	11	0	94	4	0	82	0	14	82	17	2	132	12	3	172	5	7	123	15	1	134	6	2	133	22	25	572	10	77
AARS_GTAGGAATTGGCATGTAAGA	AARS	302	33	44	239	15	41	309	105	91	268	31	25	303	64	62	271	92	21	231	45	43	241	145	72	189	33	19	194	1	4	181	32	12	221	44	104	217	65	26	216	8	28	205	64	33	205	141	111	144	13	6
AARS2_AAAGGCGGCCCTCACGGCCG	AARS2	188	222	210	129	187	151	120	208	91	133	149	251	123	126	286	94	258	89	102	204	129	107	127	118	71	203	306	75	78	156	69	102	33	134	184	213	145	162	212	108	154	68	125	413	227	103	156	298	301	702	638
AARS2_GAGATCCAGAGCCTTTCCTC	AARS2	195	119	106	138	124	48	170	150	106	165	21	43	171	73	62	136	167	76	141	86	42	162	148	54	99	130	47	94	40	25	96	40	24	167	105	81	146	101	105	99	41	202	137	91	44	115	41	166	334	87	91
AARS2_GCTGCTCAACGCCATACAGC	AARS2	147	280	137	125	57	92	130	110	77	115	44	73	117	140	221	93	105	104	114	75	38	86	246	112	77	116	94	72	52	72	60	56	65	107	123	136	85	133	94	96	80	124	87	106	157	91	206	205	182	200	150
AARS2_GGTTCCAAAGCTCTACCAGC	AARS2	212	215	121	141	317	215	181	192	142	187	120	178	104	71	66	81	72	154	104	77	182	102	134	95	85	145	149	73	42	32	85	113	79	150	173	192	138	198	117	122	212	12	127	70	75	102	294	245	184	289	402
AARSD1_GCGTGACAGTTATGCCCGAG	AARSD1	652	421	515	444	271	149	512	416	263	497	613	567	365	322	114	228	187	222	279	256	197	255	322	143	255	285	237	248	294	212	238	90	182	341	333	203	374	300	259	372	584	264	384	175	86	430	381	388	693	553	463
AASDH_AAGTCTGAGAATAAGCTCAG	AASDH	202	232	220	136	192	144	161	182	130	163	625	529	239	321	265	140	459	189	183	104	134	206	413	178	93	361	185	105	165	148	121	122	168	94	122	137	81	91	120	66	76	92	91	86	139	102	114	211	98	90	164
AASDH_AATGGCTTCACAATTCAGGA	AASDH	143	274	163	97	119	51	115	106	76	101	31	97	127	107	199	91	119	107	105	36	102	97	117	123	72	65	34	64	71	136	104	78	49	108	71	100	108	119	36	106	107	38	82	84	36	127	126	89	84	121	186
AASDH_ATGGAAACGCTTCACCACCA	AASDH	587	576	560	357	230	315	389	415	279	386	412	425	355	428	427	290	389	188	288	181	312	261	269	302	217	449	304	229	303	260	247	195	240	383	365	338	288	345	237	345	272	280	299	189	163	374	382	473	810	835	739

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Dataset Card for PMC_35559673_table_s datasets

Dataset Details

Dataset Description

This dataset contains the results of genome-wide CRISPR screens using isogenic knockout cells to uncover vulnerabilities in tumor suppressor-deficient cancer cells. The data were originally published by Feng et al., Sci. Adv. 8, eabm6638 (2022), and are available via PubMed Central (PMC). The supplementary tables included in this dataset provide detailed data on raw counts, essentiality calls, Bayes factors, and synthetic lethality (SL) hits. The dataset supports research into genetic dependencies and potential therapeutic targets.

Curated by: Feng et al., Sci. Adv. 8, eabm6638 (2022)
Funded by: Likely supported by institutions affiliated with the authors.
Shared by: Feng et al.
Language(s): Not applicable (biomedical dataset).
License: CC BY 4.0

Dataset Sources

Repository: PubMed Central
Paper: Sci. Adv. 8, eabm6638 (2022)
Supplementary Materials: Tables S1-S7

Dataset Structure

This dataset consists of seven tables (S1-S7), each representing a different aspect of the CRISPR screen results:

Table S1: Raw counts for all CRISPR screens in this study.
- File Mapping: sciadv.abm6638_table_s1.xlsx
Table S2: Binary essentiality calls matrix.
- File Mapping: sciadv.abm6638_table_s2.xlsx
Table S3: Quantile-normalized Bayes factor (QBF) matrix.
- File Mapping: sciadv.abm6638_table_s3.xlsx
Table S5: Total SL hits identified for each TSG KO screen.
- File Mapping: sciadv.abm6638_table_s5.xlsx
Table S6: Shared SL hits across each TSG KO screen.
- File Mapping: sciadv.abm6638_table_s6.xlsx
Table S7: Unique SL hits for each TSG KO screen.
- File Mapping: sciadv.abm6638_table_s7.xlsx

Dataset Creation

Curation Rationale

This dataset was curated to facilitate research into the vulnerabilities of cancer cells deficient in tumor suppressor genes. The binary essentiality calls, synthetic lethality (SL) hits, and other data allow researchers to explore genetic interactions that could serve as potential therapeutic targets. The methodology behind the CRISPR screens and SL hit identification was detailed by Feng et al. in their 2022 study.

Data Collection and Processing

Data were collected from genome-wide CRISPR screens performed on isogenic knockout cells. The data were processed to produce raw counts, binary essentiality calls, and genetic interaction matrices, including shared and unique synthetic lethal hits.

Relevant references describing the data processing and methods can be found in the following sources:

Evaluation and design of genome-wide CRISPR/SpCas9 knockout screens (PMID: 28655737)
High-resolution CRISPR screens reveal fitness genes and genotype-specific cancer liabilities (PMID: 26627737)
Identifying chemogenetic interactions from CRISPR screens with drugZ (PMID: 31439014)

Who are the source data producers?

The data were produced by Feng et al., as part of their research published in Science Advances. The researchers were affiliated with academic institutions engaged in cancer genomics and CRISPR screening methodologies.

Annotations

Annotation Process

Annotations were primarily focused on identifying shared and unique synthetic lethality hits across tumor suppressor knockout screens. Automated processing tools like CRISPR analysis pipelines were employed for initial hit identification, followed by manual validation based on genetic interactions.

Who are the annotators?

The original authors, including experts in CRISPR screening and cancer genomics, performed the annotations. No third-party annotations were added.

Bias, Risks, and Limitations

The dataset is limited to specific cancer cell lines and tumor suppressor gene knockouts. As a result, the findings may not be generalizable across all cancer types. Users should exercise caution when interpreting results outside the experimental context.

Recommendations

Users should consult the references provided to better understand the experimental design and limitations. The dataset is best suited for research applications in cancer genomics, genetic interactions, and therapeutic target discovery.

Citation

BibTeX:

@article{
  doi:10.1126/sciadv.abm6638,
  author = {Xu Feng  and Mengfan Tang  and Merve Dede  and Dan Su  and Guangsheng Pei  and Dadi Jiang  and Chao Wang  and Zhen Chen  and Mi Li  and Litong Nie  and Yun Xiong  and Siting Li  and Jeong-Min Park  and Huimin Zhang  and Min Huang  and Klaudia Szymonowicz  and Zhongming Zhao  and Traver Hart  and Junjie Chen },
  title = {Genome-wide CRISPR screens using isogenic cells reveal vulnerabilities conferred by loss of tumor suppressors},
  journal = {Science Advances},
  volume = {8},
  number = {19},
  pages = {eabm6638},
  year = {2022},
  doi = {10.1126/sciadv.abm6638},
  URL = {https://www.science.org/doi/abs/10.1126/sciadv.abm6638},
  eprint = {https://www.science.org/doi/pdf/10.1126/sciadv.abm6638},
  abstract = {Exploiting cancer vulnerabilities is critical for the discovery of anticancer drugs. However, tumor suppressors cannot be directly targeted because of their loss of function. To uncover specific vulnerabilities for cells with deficiency in any given tumor suppressor(s), we performed genome-scale CRISPR loss-of-function screens using a panel of isogenic knockout cells we generated for 12 common tumor suppressors. Here, we provide a comprehensive and comparative dataset for genetic interactions between the whole-genome protein-coding genes and a panel of tumor suppressor genes, which allows us to uncover known and new high-confidence synthetic lethal interactions. Mining this dataset, we uncover essential paralog gene pairs, which could be a common mechanism for interpreting synthetic lethality. Moreover, we propose that some tumor suppressors could be targeted to suppress proliferation of cells with deficiency in other tumor suppressors. This dataset provides valuable information that can be further exploited for targeted cancer therapy. Whole-genome CRISPR screens uncover synthetic lethal interactions for tumor suppressors.}
}

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71,090