# Integrative genomic analysis reveals DHX58 as a key player in gastric cancer

**Authors:** Yan Li, Liren Zhang, Zhi Wen, Haixia Wang, Kunming Zhang, Buzai Wang, Jinfan Li, Huiqing Kang, Yanjun Gao, Zhi Yu, Yongzhe Du

PMC · DOI: 10.1371/journal.pone.0341230 · PLOS One · 2026-01-22

## TL;DR

This study identifies DHX58 as a key gene in gastric cancer, showing it is overexpressed due to hypomethylation and may be a target for new treatments.

## Contribution

The novel contribution is identifying DHX58 as a hypomethylated hub gene linked to gastric cancer progression and immunotherapy resistance.

## Key findings

- DHX58 is hypomethylated and highly expressed in gastric cancer.
- DHX58 expression is regulated by CCAAT enhancer–binding protein α.
- DHX58 is associated with resistance to gastric cancer immunotherapy.

## Abstract

Gastric cancer (GC) is a major global health burden with limited treatment options. Identifying the molecular mechanisms underlying GC progression is critical for developing novel therapeutic strategies. We integrated whole-genome bisulfite sequencing and bulk RNA sequencing to identify hub genes involved in GC. Functional annotations were performed using Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses, supplemented by data from The Cancer Genome Atlas. Key findings were validated using western blotting, immunohistochemistry, quantitative real-time PCR, and methylation-specific PCR. DExH-box helicase 58 (DHX58) was identified as a hypomethylated, highly expressed hub gene in GC. Mechanistically, DHX58 expression is regulated by the transcription factor CCAAT enhancer–binding protein α. Immune profiling further implicated DHX58 in the development of resistance to GC immunotherapy. Our study revealed that DHX58 hypomethylation drives its overexpression in GC, making it a promising therapeutic target. These findings offer new insights into the pathogenesis of GC and suggest potential immunotherapeutic approaches.

## Linked entities

- **Genes:** DHX58 (DExH-box helicase 58) [NCBI Gene 79132]
- **Diseases:** gastric cancer (MONDO:0001056)

## Full-text entities

- **Genes:** Cebpa (CCAAT/enhancer binding protein alpha) [NCBI Gene 24252] {aka DBPCEP}, Pdcd1 (programmed cell death 1) [NCBI Gene 301626], Gapdh (glyceraldehyde-3-phosphate dehydrogenase) [NCBI Gene 24383] {aka BARS-38, Gapd}, Usf2 (upstream transcription factor 2, c-fos interacting) [NCBI Gene 81817], Alb (albumin) [NCBI Gene 24186] {aka Alb1, Albza}, Dhx58 (DEXH-box helicase 58) [NCBI Gene 303538] {aka Lgp2, RGD1310093}, DHX58 (DExH-box helicase 58) [NCBI Gene 79132] {aka D11LGP2, D11lgp2e, LGP2, RLR-3}, Rnf157 (ring finger protein 157) [NCBI Gene 688272], Tp53 (tumor protein p53) [NCBI Gene 24842] {aka Trp53, p53}, Matr3 (matrin 3) [NCBI Gene 29150] {aka P130/MAT3, snhg4}, Actb (actin, beta) [NCBI Gene 81822] {aka Actx}, Nr3c1 (nuclear receptor subfamily 3, group C, member 1) [NCBI Gene 24413] {aka GR, Gcr, Grl}, CEBPA (CCAAT enhancer binding protein alpha) [NCBI Gene 1050] {aka C/EBP-alpha, CEBP}
- **Diseases:** metastasis (MESH:D009362), AGS (MESH:C535607), carcinogenesis (MESH:D063646), inflammation (MESH:D007249), hepatitis C infection (MESH:D006526), feeding disorders (MESH:D001068), Cancer (MESH:D009369), liver cancer (MESH:D006528), GC (MESH:D013274)
- **Chemicals:** Tween-20 (MESH:D011136), MNNG (MESH:D008769), polyvinylidene fluoride (MESH:C024865), salicylate (MESH:D012459), HE (MESH:D006371), pentobarbital sodium (MESH:D010424), hematoxylin (MESH:D006416), polyacrylamide (MESH:C016679), bisulfite (MESH:C042345), saline (MESH:D012965), H2O2 (MESH:D006861), sodium salicylate (MESH:D012980), sodium dodecyl sulfate (MESH:D012967), fatty acid (MESH:D005227), TRIzol (MESH:C411644), lipid (MESH:D008055), agarose (MESH:D012685), BCA (MESH:C047117), ranitidine (MESH:D011899), SYBR Gold (-), phenylmethylsulfonyl fluoride (MESH:D010664), 3,3'-diaminobenzidine (MESH:D015100)
- **Species:** Rattus norvegicus (brown rat, species) [taxon 10116], Homo sapiens (human, species) [taxon 9606], Moloney murine leukemia virus (no rank) [taxon 11801]
- **Cell lines:** AGS — Homo sapiens (Human), Gastric adenocarcinoma, Cancer cell line (CVCL_0139)

## Full text

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## Figures

7 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12826466/full.md

## References

18 references — full list in the complete paper: https://tomesphere.com/paper/PMC12826466/full.md

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Source: https://tomesphere.com/paper/PMC12826466