PMID: 30815178Mar 1, 2019Paper

Integration of Transcriptomic Data Identifies Global and Cell-Specific Asthma-Related Gene Expression Signatures

AMIA ... Annual Symposium Proceedings
Mengyuan KanBlanca E Himes

Abstract

Over 140,000 transcriptomic studies performed in healthy and diseased cell and tissue types, at baseline and after exposure to various agents, are available in public repositories. Integrating results of transcriptomic datasets has been an attractive approach to identify gene expression signatures that are more robust than those obtained for individual datasets, especially datasets with small sample size. We developed Reproducible Analysis and Validation of Expression Data (RAVED), a pipeline that facilitates the creation of R Markdown reports detailing reproducible analysis of publicly available transcriptomic data, and used it to analyze asthma and glucocorticoid response microarray and RNA-Seq datasets. Subsequently, we used three approaches to integrate summary statistics of these studies and identify cell/tissue-specific and global asthma and glucocorticoid-induced gene expression changes. Transcriptomic integration methods were incorporated into an online app called REALGAR, where end-users can specify datasets to integrate and quickly obtain results that may facilitate design of experimental studies.

Related Concepts

Related Feeds

Asthma

This feed focuses in Asthma in which your airways narrow and swell. This can make breathing difficult and trigger coughing, wheezing and shortness of breath.

Allergy and Asthma

Allergy and asthma are inflammatory disorders that are triggered by the activation of an allergen-specific regulatory t cell. These t cells become activated when allergens are recognized by allergen-presenting cells. Here is the latest research on allergy and asthma.

Related Papers

Philosophical Transactions. Series A, Mathematical, Physical, and Engineering Sciences
Georgia TsilikiSophia Kossida
AMIA Joint Summits on Translational Science Proceedings
Catherine R Planey, Atul J Butte
© 2022 Meta ULC. All rights reserved