Introduction
Materials and methods
Data mining of GEO database
Immune infiltration analysis
Co-expression network analysis
Gene function enrichment analysis
Survival prognosis analysis
Results
Identification of differential immune cell populations
Sample | B cells naive | Mast cells activated | B cells memory |
---|---|---|---|
P14Normal | 2.78E-02 | 0.00E+ 00 | 0 |
P14Tumor | 2.67E-01 | 1.16E-01 | 0 |
P16Normal | 8.00E-02 | 0.00E+ 00 | 0 |
P16Tumor | 2.19E-01 | 1.01E-01 | 0 |
P20Normal | 5.41E-02 | 0.00E+ 00 | 0 |
Identification of infiltrating immune cells related genes based on co-expression modules
Module | Mast cells activated(cor) | P_val | Genes |
---|---|---|---|
MEbrown4 | 0.673 | 4.33E-04 | 106 |
MEdarkslateblue | 0.643 | 9.35E-04 | 116 |
MEnavajowhite2 | 0.574 | 4.19E-03 | 42 |
MEmediumorchid | 0.314 | 1.45E-01 | 109 |
MEbrown | 0.309 | 1.51E-01 | 312 |
MEgrey | 0.272 | 2.09E-01 | 151 |
MEtan | 0.167 | 4.47E-01 | 402 |
MEcoral1 | 0.139 | 5.27E-01 | 2908 |
MEcoral2 | 0.139 | 5.27E-01 | 35 |
MEdarkseagreen4 | 0.136 | 5.36E-01 | 38 |
MElavenderblush3 | 0.098 | 6.57E-01 | 40 |
MEdarkmagenta | 0.007 | 9.74E-01 | 151 |
MEskyblue1 | −0.023 | 9.16E-01 | 32 |
MEdarkturquoise | −0.284 | 1.89E-01 | 558 |
The potential clinical characteristics of modules related to mast cells activated
ID | Term | p_value | Count | Enrichment_Score |
---|---|---|---|---|
GO:0007275 | multicellular_organism_development | 2.50E-22 | 341 | 21.603 |
GO:0007165 | signal_transduction | 2.23E-06 | 278 | 5.652 |
GO:0048513 | animal_organ_development | 5.63E-23 | 248 | 22.250 |
GO:0009653 | anatomical_structure_morphogenesis | 1.66E-32 | 212 | 31.779 |
GO:0019538 | protein_metabolic_process | 2.07E-02 | 212 | 1.684 |
The hub genes for OS survival prognosis
gene | os_cox_p value | gene | os_cox_p value |
---|---|---|---|
BAIAP2L2 | 4.47E-04 | PAMR1 | 1.29E-02 |
SNAPC3 | 1.32E-03 | CYGB | 1.65E-02 |
PSIP1 | 1.71E-03 | ZDHHC21 | 1.96E-02 |
ATAD2 | 3.42E-03 | SORBS2 | 2.15E-02 |
PDPN | 8.35E-03 |