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

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

Dataset Structure

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

  1. Table S1: Raw counts for all CRISPR screens in this study.

    • File Mapping: sciadv.abm6638_table_s1.xlsx
  2. Table S2: Binary essentiality calls matrix.

    • File Mapping: sciadv.abm6638_table_s2.xlsx
  3. Table S3: Quantile-normalized Bayes factor (QBF) matrix.

    • File Mapping: sciadv.abm6638_table_s3.xlsx
  4. Table S5: Total SL hits identified for each TSG KO screen.

    • File Mapping: sciadv.abm6638_table_s5.xlsx
  5. Table S6: Shared SL hits across each TSG KO screen.

    • File Mapping: sciadv.abm6638_table_s6.xlsx
  6. 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.}
}

Dataset Card Contact

dwb2023

Downloads last month
36
Edit dataset card