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Related Experiment Video

Updated: Dec 18, 2025

Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases
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Bioinformatic Identification of a Breast-Specific Transcript Profile.

Chen Chen1,2, Liwen Yang1, Mahdi Rivandi1

  • 1Department of Obstetrics and Gynecology, Heinrich Heine University of Duesseldorf, Duesseldorf, 40225, Germany.

Proteomics. Clinical Applications
|June 20, 2020
PubMed
Summary

Researchers identified 96 breast-specific transcripts, including ANKRD30A and LINC00993. These rare transcripts show potential as biomarkers for early breast cancer detection and treatment strategies.

Keywords:
ANKRD30ALINC00993bioinformaticsbiomarkersbreasttissue-specific

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Area of Science:

  • Genomics
  • Bioinformatics
  • Cancer Biology

Background:

  • Breast-specific transcripts are poorly understood.
  • Identifying tissue-specific transcripts is crucial for understanding cancer biology.

Purpose of the Study:

  • To identify a breast-specific transcript profile.
  • To develop an updated bioinformatics strategy for tissue-specific transcript analysis.
  • To predict the significance of these transcripts in cancer.

Main Methods:

  • Integrated RNA-seq data from GTEx, Illumina Body Map, and RIKEN FANTOM5 projects.
  • Screened for breast-specific transcripts across 88 human tissues.
  • Utilized GEPIA, TCGA, and Kaplan-Meier Plotter for cancer expression and prognosis analysis.

Main Results:

  • Identified 96 breast-specific transcripts in the human genome.
  • Ankyrin repeat domain 30A (ANKRD30A) and LINC00993 were further analyzed.
  • These transcripts are specific to breast tissue, dysregulated in 33 female cancers, and linked to patient prognosis.

Conclusions:

  • Breast-specific transcripts are rare but hold significant potential as biomarkers.
  • ANKRD30A and LINC00993 may serve in early cancer screening, treatment response assessment, and as immunotherapy targets.