dbPTB: a database for preterm birth (bibtex)
by Alper Uzun, Alyse Laliberte, Jeremy Parker, Caroline Andrew, Emily Winterrowd, Surendra Sharma, Sorin Istrail, James F. Padbury
Abstract:
Genome-wide association studies (GWAS) query the entire genome in a hypothesis-free, unbiased manner. Since they have the potential for identifying novel genetic variants, they have become a very popular approach to the investigation of complex diseases. Nonetheless, since the success of the GWAS approach varies widely, the identification of genetic variants for complex diseases remains a difficult problem. We developed a novel bioinformatics approach to identify the nominal genetic variants associated with complex diseases. To test the feasibility of our approach, we developed a web-based aggregation tool to organize the genes, genetic variations and pathways involved in preterm birth. We used semantic data mining to extract all published articles related to preterm birth. All articles were reviewed by a team of curators. 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 form a unique resource for investigators interested in preterm birth. The Database for Preterm Birth exemplifies an approach that is generalizable to other disorders for which there is evidence of significant genetic contributions.
Reference:
Alper Uzun, Alyse Laliberte, Jeremy Parker, Caroline Andrew, Emily Winterrowd, Surendra Sharma, Sorin Istrail, James F. Padbury, "dbPTB: a database for preterm birth", In Database (Oxford), vol. 2012, pp. bar069, 2012.
Bibtex Entry:
@ARTICLE{Uzun2012,
  author = {Uzun, Alper and Laliberte, Alyse and Parker, Jeremy and Andrew, Caroline
	and Winterrowd, Emily and Sharma, Surendra and Istrail, Sorin and
	Padbury, James F.},
  title = {dbPTB: a database for preterm birth},
  journal = {Database (Oxford)},
  year = {2012},
  volume = {2012},
  pages = {bar069},
  abstract = {Genome-wide association studies (GWAS) query the entire genome in
	a hypothesis-free, unbiased manner. Since they have the potential
	for identifying novel genetic variants, they have become a very popular
	approach to the investigation of complex diseases. Nonetheless, since
	the success of the GWAS approach varies widely, the identification
	of genetic variants for complex diseases remains a difficult problem.
	We developed a novel bioinformatics approach to identify the nominal
	genetic variants associated with complex diseases. To test the feasibility
	of our approach, we developed a web-based aggregation tool to organize
	the genes, genetic variations and pathways involved in preterm birth.
	We used semantic data mining to extract all published articles related
	to preterm birth. All articles were reviewed by a team of curators.
	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
	form a unique resource for investigators interested in preterm birth.
	The Database for Preterm Birth exemplifies an approach that is generalizable
	to other disorders for which there is evidence of significant genetic
	contributions.},
  doi = {10.1093/database/bar069},
  edition = {2012/02/11},
  owner = {Derek},
  timestamp = {2012.05.08},
  url = {http://www.brown.edu/Research/Istrail_Lab/papers/bar069.pdf},
  category = {Pre-term Labor}
}
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