A Bioinformatics Approach to Preterm Birth

Authors

  • Alper Uzun,

    1. Department of Pediatrics, Women and Infants Hospital of Rhode Island, Providence, Rhode Island
    2. Center for Computational Molecular Biology, Providence, Rhode Island
    3. Brown Alpert Medical School, Providence, Rhode Island
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  • Surendra Sharma,

    1. Department of Pediatrics, Women and Infants Hospital of Rhode Island, Providence, Rhode Island
    2. Brown Alpert Medical School, Providence, Rhode Island
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  • James Padbury

    Corresponding author
    1. Brown Alpert Medical School, Providence, Rhode Island
    • Department of Pediatrics, Women and Infants Hospital of Rhode Island, Providence, Rhode Island
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  • Article condensation The ‘database for preterm birth’ is an aggregation tool to organize the publications, genes, genetic variations and pathways related to preterm birth for use by clinicians and basic scientists.

Correspondence

James Padbury, MD, Department of Pediatrics, Women and Infants Hospital-Warren Alpert Medical School of Brown University, 101 Dudley Street, Providence 02905, Rhode Island.

E-mail: JPadbury@wihri.org

Abstract

A vast body of literature has suggested genetic programming of preterm birth. However, there is a complete lack of an organized analysis and stratification of genetic variants that may indeed be involved in the pathogenesis of preterm birth. We developed a novel bioinformatics approach to identify the nominal genetic variants associated with preterm birth. We used semantic data mining to extract all published articles related to preterm birth. Genes identified from public databases and archives of expression arrays were aggregated with genes curated from the literature. Pathway analysis was used to impute genes from pathways identified in the curations. The curated articles and collected genetic information are available in a web-based tool, the database for preterm birth (dbPTB) that forms a unique resource for investigators interested in preterm birth.

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