Dataset Information

In Search of 'Birth Month Genes': Using Existing Data Repositories to Locate Genes Underlying Birth Month-Disease Relationships.

ABSTRACT: Prenatal and perinatal exposures vary seasonally (e.g., sunlight, allergens) and many diseases are linked with variance in exposure. Epidemiologists often measure these changes using birth month as a proxy for seasonal variance. Likewise, Genome-Wide Association Studies have associated or implicated these same diseases with many genes. Both disparate data types (epidemiological and genetic) can provide key insights into the underlying disease biology. We developed an algorithm that links 1) epidemiological data from birth month studies with 2) genetic data from published gene-disease association studies. Our framework uses existing data repositories - PubMed, DisGeNET and Gene Ontology - to produce a bipartite network that connects enriched seasonally varying biofactorss with birth month dependent diseases (BMDDs) through their overlapping developmental gene sets. As a proof-of-concept, we investigate 7 known BMDDs and highlight three important biological networks revealed by our algorithm and explore some interesting genetic mechanisms potentially responsible for the seasonal contribution to BMDDs.

SUBMITTER: Boland MR

PROVIDER: S-EPMC5001771 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

In Search of 'Birth Month Genes': Using Existing Data Repositories to Locate Genes Underlying Birth Month-Disease Relationships.

Boland Mary Regina MR Tatonetti Nicholas P NP

AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science 20160720

Prenatal and perinatal exposures vary seasonally (e.g., sunlight, allergens) and many diseases are linked with variance in exposure. Epidemiologists often measure these changes using birth month as a proxy for seasonal variance. Likewise, Genome-Wide Association Studies have associated or implicated these same diseases with many genes. Both disparate data types (epidemiological and genetic) can provide key insights into the underlying disease biology. We developed an algorithm that links 1) epid ...[more]

PMID: 27570668

Similar Datasets

Project description:BackgroundThe communities we live in are central to our health. Neighborhood disadvantage is associated with worse physical and mental health and even early mortality, while resident sense of safety and positive neighborhood sentiment has been repeatedly linked to better physical and mental health outcomes. Therefore, understanding where negative neighborhood sentiment and safety are salient concerns can help inform public health interventions and as a result, improve health outcomes. To date, fear of crime and neighborhood sentiment data or indices have largely been based on the administration of time consuming and costly standardized surveys.ObjectiveThe current study aims to develop a Neighborhood Sentiment and Safety Index (NSSI) at the census tract level, building on publicly available data repositories, including the US Census and ACS surveys, Data Axle, and ESRI repositories.MethodsThe NSSI was created using Principal Component Analysis. Mineigen and minimum loading values were 1 and 0.3, respectively. Throughout the step-wise PCA process, variables were excluded if their loading value was below 0.3 or if variables loaded into multiple components.ResultsThe novel index was validated against standardized survey items from a longitudinal cohort study in the Northeastern United States characterizing experiences of (1) Neighborhood Characteristics with a Pearson correlation of -0.34 (p < 0.001) and, (2) Neighborhood Behavior Impact with a Pearson correlation of -0.33 (p < 0.001). It also accurately predicted the Share Care Community Well Being Index (Spearman correlation = 0.46) and the neighborhood deprivation index (NDI) (Spearman correlation = -0.75).SignificanceOur NSSI can serve as a predictor of neighborhood experience where data is either unavailable or too resource consuming to practically implement in planned studies.Impact statementTo date, fear of crime and neighborhood sentiment data or indices have largely been based on the administration of time consuming and costly standardized surveys. The current study aims to develop a Neighborhood Sentiment and Safety Index (NSSI) at the census tract level, building on publicly available data repositories, including the US Census and ACS surveys, Data Axle, and ESRI repositories. The NSSI was validated against four separate measures and can serve as a predictor of neighborhood experience where data is either unavailable or too resource consuming to practically implement in planned studies.

Dataset Information

In Search of 'Birth Month Genes': Using Existing Data Repositories to Locate Genes Underlying Birth Month-Disease Relationships.

Publications

In Search of 'Birth Month Genes': Using Existing Data Repositories to Locate Genes Underlying Birth Month-Disease Relationships.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets