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Updated: Nov 17, 2025

Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases
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Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases

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CLIP4 Shows Putative Tumor Suppressor Characteristics in Breast Cancer: An Integrated Analysis

Yu Fan1, Lijia He1, Yu Wang2

  • 1Department of Oncology, The Affiliated Hospital of Southwest Medical University, Nuclear Medicine and Molecular Imaging Key Laboratory of Sichuan Province, Academician (Expert) Workstation of Sichuan Province, Luzhou, China.

Frontiers in Molecular Biosciences
|February 12, 2021
PubMed

Insights

Downregulated CAP-Gly domain containing linker protein family member 4 (CLIP4) in breast cancer correlates with poor prognosis and is linked to methylation. Methylated CLIP4 may serve as a novel biomarker.

Area of Science:

  • Oncology
  • Molecular Biology
  • Genetics

Background:

  • CAP-Gly domain containing linker protein family member 4 (CLIP4) has known roles in various cancers.
  • Its specific role, expression, and prognostic significance in breast cancer are not well understood.

Purpose of the Study:

  • To investigate the expression, prognostic value, and biological mechanisms of CLIP4 in breast cancer.
  • To explore CLIP4's potential as a biomarker for breast cancer prognosis and therapy.

Main Methods:

  • Utilized TCGA-BRCA and other public omics databases for expression and prognostic analyses.
  • Employed bioinformatics tools (Oncomine, Kaplan-Meier Plotter, GSEA, STRING, Metascape) for gene co-expression, pathway enrichment, and epigenetic analysis.
  • Investigated genetic and epigenetic factors, including DNA methylation, influencing CLIP4 expression.

Main Results:

  • CLIP4 expression was downregulated in breast cancer and negatively correlated with ER, PR, HER2 status, NPI, and SBR grade.
  • Higher CLIP4 expression was associated with basal-like and triple-negative breast cancer subtypes and linked to poor prognosis.
  • Enrichment analysis revealed associations with Hedgehog, JAK-STAT, ERBB, Wnt signaling pathways, and cell adhesion molecules.
  • CLIP4 expression inversely correlated with DNA methylation levels.

Conclusions:

  • Downregulated and methylated CLIP4 is associated with aggressive breast cancer subtypes and poor prognosis.
  • CLIP4, particularly its methylated form, shows potential as a novel prognostic and therapeutic biomarker for breast cancer.
Keywords:
CAP-Gly domain containing linker protein family member 4DNA methylationbiomarkerbreast cancerintegrated analysisprognosis

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