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©The Author(s) 2023.
World J Methodol. Sep 20, 2023; 13(4): 223-237
Published online Sep 20, 2023. doi: 10.5662/wjm.v13.i4.223
Published online Sep 20, 2023. doi: 10.5662/wjm.v13.i4.223
Immune cell | Biomarker | COAD | STAD | GBM | |||||||||
None | Purity | None | Purity | None | Purity | ||||||||
Cor | P value | Cor | P value | Cor | P value | Cor | P value | Cor | P value | Cor | P value | ||
CD8+ T cell | CD8A | 0.052 | 2.64E-01 | 0.008 | 8.73E-01 | 0.306 | c | 0.305 | c | -0.056 | 4.90E-01 | -0.026 | 7.62E-01 |
CD8B | -0.043 | 3.60E-01 | -0.076 | 1.25E-01 | 0.158 | b | 0.151 | b | -0.157 | 5.30E-02 | -0.124 | 1.50E-01 | |
T cell | CD3D | 0.034 | 4.72E-01 | -0.009 | 8.63E-01 | 0.23 | c | 0.228 | c | -0.140 | 8.37E-02 | -0.114 | 1.86E-01 |
CD3E | 0.123 | b | 0.099 | a | 0.248 | c | 0.245 | c | -0.042 | 6.06E-01 | 0.007 | 9.38E-01 | |
CD2 | 0.176 | c | 0.168 | c | 0.304 | c | 0.307 | c | -0.074 | 3.61E-01 | -0.034 | 6.96E-01 | |
B cell | CD19 | 0.116 | a | 0.099 | a | 0.183 | c | 0.161 | b | 0.019 | 8.14E-01 | -0.047 | 5.86E-01 |
CD79A | 0.197 | c | 0.18 | c | 0.18 | c | 0.155 | b | 0.093 | 2.55E-01 | 0.133 | 1.21E-01 | |
Monocyte | CD86 | 0.255 | c | 0.258 | c | 0.361 | c | 0.375 | c | 0.024 | 7.72E-01 | 0.104 | 2.28E-01 |
CD115 (CSF1R) | 0.189 | c | 0.176 | c | 0.439 | c | 0.44 | c | 0.200 | a | 0.302 | c | |
TAM | CCL2 | 0.352 | c | 0.337 | c | 0.348 | c | 0.355 | c | 0.034 | 6.74E-01 | 0.083 | 3.35E-01 |
CD68 | 0.096 | a | 0.094 | 5.76E-02 | 0.17 | c | 0.169 | c | 0.169 | a | 0.275 | b | |
IL10 | 0.21 | c | 0.204 | c | 0.384 | c | 0.406 | c | -0.043 | 5.98E-01 | 0.036 | 6.78E-01 | |
M1 Macrophage | INOS (NOS2) | -0.196 | c | -0.196 | c | 0.035 | 4.75E-01 | 0.061 | 2.36E-01 | 0.049 | 5.50E-01 | 0.082 | 3.39E-01 |
IRF5 | 0.216 | c | 0.219 | c | 0.108 | a | 0.093 | 7.03E-02 | 0.040 | 6.26E-01 | 0.094 | 2.74E-01 | |
COX2 (PTGS2) | 0.084 | 7.40E-02 | 0.039 | 4.31E-01 | 0.186 | c | 0.183 | c | 0.198 | a | 0.254 | b | |
M2 Macrophage | CD163 | 0.187 | c | 0.168 | c | 0.395 | c | 0.397 | c | 0.155 | 5.51E-02 | 0.213 | a |
VSIG4 | 0.18 | c | 0.158 | b | 0.401 | c | 0.421 | c | 0.018 | 8.25E-01 | 0.101 | 2.39E-01 | |
MS4A4A | 0.221 | c | 0.204 | c | 0.421 | c | 0.431 | c | 0.060 | 4.58E-01 | 0.166 | 5.21E-02 | |
Neutrophils | CD66B (CEACAM8) | -0.024 | 6.15E-01 | -0.013 | 7.98E-01 | 0.029 | 5.57E-01 | 0.034 | 5.08E-01 | 0.033 | 6.87E-01 | 0.044 | 6.11E-01 |
CD11B (ITGAM) | 0.136 | b | 0.13 | b | 0.392 | c | 0.392 | c | 0.233 | b | 0.319 | c | |
CCR7 | 0.17 | c | 0.16 | b | 0.322 | c | 0.325 | c | 0.226 | b | 0.254 | b | |
Natural killer cell | KIR2DL1 | -0.024 | 6.08E-01 | -0.057 | 2.51E-01 | 0.143 | b | 0.145 | b | -0.025 | 7.62E-01 | -0.027 | 7.52E-01 |
KIR2DL3 | -0.076 | 1.06E-01 | -0.091 | 6.78E-02 | 0.094 | 5.45E-02 | 0.083 | 1.07E-01 | -0.022 | 7.88E-01 | -0.052 | 5.48E-01 | |
KIR2DL4 | -0.072 | 1.23E-01 | -0.11 | a | 0.005 | 9.25E-01 | 0.003 | 9.61E-01 | -0.009 | 9.11E-01 | 0.009 | 9.13E-01 | |
KIR3DL1 | -0.049 | 2.92E-01 | -0.073 | 1.40E-01 | 0.142 | b | 0.127 | a | 0.042 | 6.06E-01 | 0.018 | 8.34E-01 | |
KIR3DL2 | -0.01 | 8.31E-01 | -0.063 | 2.04E-01 | 0.146 | b | 0.147 | b | -0.086 | 2.93E-01 | -0.060 | 4.86E-01 | |
KIR3DL3 | -0.086 | 6.63E-02 | -0.093 | 6.04E-02 | -0.078 | 1.12E-01 | -0.064 | 2.16E-01 | -0.118 | 1.48E-01 | -0.107 | 2.12E-01 | |
KIR2DS4 | -0.015 | 7.48E-01 | -0.026 | 5.99E-01 | 0.051 | 3.03E-01 | 0.044 | 3.95E-01 | -0.001 | 9.88E-01 | 0.003 | 9.72E-01 | |
Dendritic cell | HLA-DPB1 | 0.051 | 2.73E-01 | 0.024 | 6.27E-01 | 0.287 | c | 0.291 | c | 0.032 | 6.91E-01 | 0.108 | 2.08E-01 |
HLA-DQB1 | 0.056 | 2.29E-01 | 0.037 | 4.55E-01 | 0.152 | b | 0.153 | b | 0.152 | 6.11E-02 | 0.234 | b | |
HLA-DRA | 0.125 | b | 0.103 | a | 0.268 | c | 0.27 | c | -0.049 | 5.51E-01 | 0.014 | 8.73E-01 | |
HLA-DPA1 | 0.16 | c | 0.142 | b | 0.255 | c | 0.256 | c | 0.032 | 6.91E-01 | 0.108 | 2.08E-01 | |
BDCA-1 (CD1C) | 0.29 | c | 0.291 | c | 0.303 | c | 0.302 | c | -0.030 | 7.10E-01 | 0.025 | 7.70E-01 | |
BDCA-4 (NRP1) | 0.348 | c | 0.37 | c | 0.523 | c | 0.52 | c | 0.376 | c | 0.462 | c | |
CD11c (ITGAX) | 0.156 | c | 0.15 | b | 0.341 | c | 0.348 | c | 0.081 | 3.19E-01 | 0.099 | 2.49E-01 | |
Th1 | T-bet (TBX21) | 0.069 | 1.39E-01 | 0.06 | 2.27E-01 | 0.266 | c | 0.264 | c | 0.237 | b | 0.258 | b |
STAT4 | 0.159 | c | 0.148 | b | 0.301 | c | 0.294 | c | -0.091 | 2.63E-01 | -0.043 | 6.18E-01 | |
STAT1 | 0.197 | c | 0.182 | c | 0.189 | c | 0.177 | c | 0.078 | 3.38E-01 | 0.075 | 3.84E-01 | |
IFN-γ (IFNG) | 0.023 | 6.28E-01 | 0.009 | 8.53E-01 | 0.098 | a | 0.091 | 7.73E-02 | 0.120 | 1.40E-01 | 0.130 | 1.30E-01 | |
TNF-α (TNF) | 0.118 | a | 0.098 | a | 0.104 | a | 0.071 | 1.67E-01 | 0.022 | 7.83E-01 | 0.026 | 7.67E-01 | |
Th2 | GATA3 | 0.176 | c | 0.183 | c | 0.305 | c | 0.304 | c | 0.125 | 1.24E-01 | 0.143 | 9.67E-02 |
STAT6 | 0.006 | 8.92E-01 | 0.01 | 8.44E-01 | 0.224 | c | 0.219 | c | 0.289 | c | 0.353 | c | |
STAT5A | 0.155 | c | 0.172 | c | 0.431 | c | 0.426 | c | 0.071 | 3.81E-01 | 0.104 | 2.24E-01 | |
IL13 | 0.124 | b | 0.099 | a | 0.151 | b | 0.153 | b | 0.021 | 7.93E-01 | 0.029 | 7.39E-01 | |
Tfh | BCL6 | 0.145 | b | 0.143 | b | 0.388 | c | 0.367 | c | 0.238 | b | 0.232 | b |
IL21 | 0.074 | 1.13E-01 | 0.06 | 2.31E-01 | 0.133 | b | 0.12 | a | 0.023 | 7.73E-01 | -0.026 | 7.67E-01 | |
Th17 | STAT3 | 0.318 | c | 0.327 | c | 0.426 | c | 0.411 | c | 0.404 | c | 0.394 | c |
IL17A | 0.055 | 2.42E-01 | 0.057 | 2.51E-01 | -0.124 | a | -0.133 | b | -0.077 | 3.42E-01 | -0.082 | 3.42E-01 | |
Treg | FOXP3 | 0.218 | c | 0.214 | c | 0.224 | c | 0.223 | c | 0.065 | 4.24E-01 | 0.073 | 3.98E-01 |
CCR8 | 0.317 | c | 0.327 | c | 0.341 | c | 0.336 | c | 0.052 | 5.26E-01 | 0.082 | 3.38E-01 | |
STAT5B | 0.401 | c | 0.413 | c | 0.499 | c | 0.491 | c | 0.218 | b | 0.179 | a | |
TGFβ (TGFB1) | 0.114 | a | 0.106 | 3.28E-02 | 0.418 | c | 0.406 | c | 0.325 | c | 0.387 | c | |
T cell (exhausted) | PD1 (PDCD1) | -0.016 | 7.28E-01 | -0.05 | 3.16E-01 | 0.205 | c | 0.202 | c | 0.085 | 2.96E-01 | 0.132 | 1.23E-01 |
CTLA4 | 0.1 | a | 0.092 | 6.43E-02 | 0.17 | c | 0.164 | b | 0.030 | 7.12E-01 | 0.060 | 4.89E-01 | |
LAG3 | -0.001 | 9.91E-01 | -0.041 | 4.04E-01 | 0.202 | c | 0.196 | c | 0.116 | 1.52E-01 | 0.126 | 1.42E-01 | |
TIM-3 (HAVCR2) | 0.223 | c | 0.22 | c | 0.38 | c | 0.391 | c | 0.046 | 5.76E-01 | 0.106 | 2.16E-01 | |
GZMB | 0.028 | 5.53E-01 | 0.007 | 8.89E-01 | 0.134 | b | 0.132 | b | -0.009 | 9.15E-01 | 0.043 | 6.20E-01 |
- Citation: Xu Y, Hou YY, Wu Z, Fang ZX, Wu HT, Liu J. Comprehensive analysis of cell-extracellular matrix protein Ras suppressor-1 in function and prognosis of gastrointestinal cancers. World J Methodol 2023; 13(4): 223-237
- URL: https://www.wjgnet.com/2222-0682/full/v13/i4/223.htm
- DOI: https://dx.doi.org/10.5662/wjm.v13.i4.223