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EPEK: Creation and analysis of an Ectopic Pregnancy Expression Knowledgebase.

Ananya Natarajan1, Nikhil Chivukula2, Gokul Balaji Dhanakoti3

  • 1Indian Institute of Science Education and Research (IISER) Mohali, Punjab, India.

Computational Biology and Chemistry
|April 8, 2023
PubMed
Summary

A new database, Ectopic Pregnancy Expression Knowledgebase (EPEK), compiles human gene expression data for ectopic pregnancy (EP). This resource aids in understanding EP

Keywords:
EPEK resourceEctopic PregnancyEnrichment analysisExpression profileNetwork analysis

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Area of Science:

  • Genomics
  • Reproductive Medicine
  • Bioinformatics

Background:

  • Ectopic pregnancy (EP) is a major cause of maternal mortality.
  • Genetic factors influence embryo transport, but human EP gene expression data is fragmented.
  • Existing resources lack specific compilation for EP-associated genes.

Purpose of the Study:

  • To create the first dedicated computational resource for human ectopic pregnancy expression data.
  • To compile and curate gene, metabolite, and SNP information related to EP from published studies.
  • To facilitate research into the genetic and molecular underpinnings of EP.

Main Methods:

  • Manual compilation and curation of expression profiles from published human EP studies.
  • Development of the Ectopic Pregnancy Expression Knowledgebase (EPEK).
  • Computational analysis of compiled gene sets.

Main Results:

  • EPEK contains data on 314 differentially expressed genes, 17 metabolites, and 3 SNPs associated with EP.
  • Analysis revealed the involvement of cellular signaling pathways in EP.
  • Potential exosome markers for EP diagnosis were identified.

Conclusions:

  • EPEK is the first comprehensive resource for human EP expression profiles.
  • The database supports further investigation into EP mechanisms and potential biomarkers.
  • EPEK provides a valuable tool for researchers in reproductive health and genetics.