Gene knocks out with CRISPR in colorectal cancer cell lines with or without APC and other WNT/β-catenin pathway mutations
Cell line
APC
RNF43
CTNNB1
TCF7L2
Gene effect
Z-score
Rank
Gene effect
Z-score
Rank
Gene effect
Z-score
Rank
Gene effect
Z-score
Rank
Quadruple mutated
HCT-15
–0.27
0.23
10,419
–0.07
–0.7
3,831
–1.36
–3.08
122
0.09
0.75
13,906
KM12
–0.21
0.45
12,777
0.19
1.67
17,604
–1.42
–3.22
15
–0.25
–0.65
3,705
LoVo
–0.44
–0.42
5,884
–0.12
–1.11
2,469
–1.16
–2.54
189
–0.47
–1.55
1,284
LS411N
–0.13
0.76
12,095
0.03
0.25
9,534
–2.51
–6.15
19
–0.6
–2.09
1,222
SNU-C4
–0.61
–1.06
2,218
0.13
1.13
15,995
–1.72
–4.04
11
–1
–3.69
21
SNU-C5
–0.35
–0.08
7,663
–0.04
–0.42
5,354
–0.32
–0.27
6,313
–0.22
–0.55
4,629
APC only mutated
C75
–0.13
0.75
12,681
0.21
1.9
16,539
–1.2
–2.64
477
–0.92
–3.37
155
C80
0.13
1.82
16,873
–0.006
–0.09
8,039
–1.12
–2.42
456
–0.71
–2.5
401
C84
–0.76
–1.66
1,204
0.06
0.53
11,781
–2.11
–5.09
4
–0.79
–2.84
174
COLO 201
–0.28
0.18
10,692
0.06
0.56
14,017
–1.9
–4.52
14
–0.91
–3.32
37
DiFi
–0.05
1.06
13,404
0.1
0.9
12,728
–1.08
–2.31
924
–0.6
–2.09
1,219
HCC2998
–0.35
–0.07
7,755
–0.02
–0.26
6,743
–1.58
–3.65
195
–0.69
–2.44
746
MDST8
–0.39
–0.24
6,913
0.06
0.51
12,398
–0.89
–1.82
777
–0.05
0.13
9,717
SW1116
–0.43
–0.37
4,910
0.03
0.32
12,360
–0.35
–0.36
4,978
–0.74
–2.62
73
Triple mutated
HCC-56
0.05
1.51
16,795
0.1
0.88
14,525
–0.53
–0.84
3,428
–0.71
–2.52
182
HCT 116
–0.12
0.81
13,695
0.05
0.41
11,203
–0.61
–1.07
2,413
–0.52
–1.75
953
LS1034
0.28
2.38
17,489
0.23
2.03
17,082
–1.71
–4.01
43
–1.03
–3.78
63
NCI-H716
–0.34
–0.05
7,958
0.04
0.41
10,878
0.01
0.61
12,069
0.09
0.72
12,712
RKO
0.01
1.36
17,773
0.07
0.66
15,835
–0.06
0.4
13,860
–0.02
0.23
12,188
Quadruple wild type
C10
–0.72
–1.51
1,919
–0.01
–0.14
7,219
–0.05
0.44
10,809
–0.08
0.01
8,181
C99
–0.25
0.3
10,691
0.02
0.15
9,788
–1.09
–2.35
563
–0.52
–1.75
1,355
LS513
–0.18
0.57
12,725
–0.09
–0.85
3,479
–1
–2.11
496
–0.77
–2.75
176
Data are from the DepMap, Public 24Q2+Score, and Chronos projects. The Z-score was computed as the gene effect minus the mean across cell line models divided by the standard deviation (SD). Not all cell lines of the original cohorts had data available in the CRISPR arrays. APC: adenomatous polyposis coli
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