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Nucleic Acids Res. 2016 Jan 4;44(D1):D908-16. doi: 10.1093/nar/gkv1137. Epub 2015 Nov 14.

GEneSTATION 1.0: a synthetic resource of diverse evolutionary and functional genomic data for studying the evolution of pregnancy-associated tissues and phenotypes.

Author information

1
Department of Biological Sciences, Vanderbilt University, Nashville, TN 37235, USA.
2
Department of Genetics, Geisel School of Medicine, Dartmouth College, Hanover, NH 03755, USA.
3
Center for Prevention of Preterm Birth, Perinatal Institute, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA.
4
Department of Biological Sciences, Vanderbilt University, Nashville, TN 37235, USA Department of Biomedical Informatics, Vanderbilt University Medical Center, Nashville, TN 37235, USA.
5
Department of Biological Sciences, University of Cincinnati, Cincinnati, OH 45221, USA.
6
Department of Biological Sciences, Vanderbilt University, Nashville, TN 37235, USA Department of Biomedical Informatics, Vanderbilt University Medical Center, Nashville, TN 37235, USA antonis.rokas@vanderbilt.edu.

Abstract

Mammalian gestation and pregnancy are fast evolving processes that involve the interaction of the fetal, maternal and paternal genomes. Version 1.0 of the GEneSTATION database (http://genestation.org) integrates diverse types of omics data across mammals to advance understanding of the genetic basis of gestation and pregnancy-associated phenotypes and to accelerate the translation of discoveries from model organisms to humans. GEneSTATION is built using tools from the Generic Model Organism Database project, including the biology-aware database CHADO, new tools for rapid data integration, and algorithms that streamline synthesis and user access. GEneSTATION contains curated life history information on pregnancy and reproduction from 23 high-quality mammalian genomes. For every human gene, GEneSTATION contains diverse evolutionary (e.g. gene age, population genetic and molecular evolutionary statistics), organismal (e.g. tissue-specific gene and protein expression, differential gene expression, disease phenotype), and molecular data types (e.g. Gene Ontology Annotation, protein interactions), as well as links to many general (e.g. Entrez, PubMed) and pregnancy disease-specific (e.g. PTBgene, dbPTB) databases. By facilitating the synthesis of diverse functional and evolutionary data in pregnancy-associated tissues and phenotypes and enabling their quick, intuitive, accurate and customized meta-analysis, GEneSTATION provides a novel platform for comprehensive investigation of the function and evolution of mammalian pregnancy.

PMID:
26567549
PMCID:
PMC4702823
DOI:
10.1093/nar/gkv1137
[Indexed for MEDLINE]
Free PMC Article

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