Table 1 The differentially expressed HOX genes in association with head and neck squamous cell carcinoma.

From: Integrated computational analysis reveals HOX genes cluster as oncogenic drivers in head and neck squamous cell carcinoma

DEHGs

Genes

Upregulated

HOXA9, HOXA10, HOXA11, HOXB7, HOXB9, HOXB13, HOXC4, HOXC5, HOXC6, HOXC8, HOXC9, HOXC10, HOXD1, HOXD10, HOXD11, HOXD13

Differentially methylated

HOXA9, HOXA10, HOXA11, HOXB7, HOXB13, HOXC8, HOXC9, HOXD10, HOXD13

Hypermethylated genes

HOXD10

Inverse correlation—Gene expression and methylation

HOXA9, HOXA10, HOXB7, HOXB13, HOXC9

Positive correlation—Gene expression and methylation

HOXD10

SNVs

Missense mutation: HOXA11, HOXB7, HOXB13, HOXC4, HOXC6, HOXC8, HOXC9, HOXC10, HOXD10, HOXD13

Non-sense mutation: HOXB7

In-frame deletion: HOXD13

CNVs

HOXA9, HOXA10, HOXA11, HOXB7, HOXB9, HOXB13, HOXC4, HOXC5, HOXC6, HOXC8, HOXC9, HOXC10, HOXD1, HOXD10, HOXD11, HOXD13

Associated with HPV infection

DE between HPV- positive and HPV-negative tumors: HOXB13, HOXC5, HOXC6, HOXC9 and HOXD11

Cancer staging

Stage 1 versus stage 4: HOXA10, HOXB9, and HOXC8

Stage 2 versus stage 4: HOXC4

All the stages: HOXD1

Survival status

OS- HOXC5, HOXC6, HOXB9

DFS- HOXC8

  1. All the genes mentioned in this table are statistically significant in the corresponding analysis performed (p ≤ 0.05). Supplementary Tables  S1–S6 shows the fold change values, sample size, and statistical significance of all the analysis performed.
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