Genetics and Genomics

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Section on Genetics and Genomics

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Publication Spotlight

OBIF: an omics-based interaction framework to reveal molecular drivers of synergy

Authors: Jezreel Pantaleón GarcíaVikram V KulkarniTanner C ReeseShradha WaliSaima J WaseJiexin ZhangRatnakar SinghMauricio S CaetanoHumam KadaraSeyed Javad MoghaddamFaye M JohnsonJing WangYongxing WangScott E Evans

Description: In the absence of an accepted systems theory to interrogate synergistic responses, this study introduces an Omics-Based Interaction Framework (OBIF) to reveal molecular drivers of synergy through integration of statistical and biological interactions in synergistic biological responses. OBIF performs full factorial analysis of feature expression data from single versus dual exposures to identify molecular clusters that reveal synergy-mediating pathways, functions and regulators. As a practical demonstration, OBIF analyzed transcriptomic and proteomic data of a dyad of immunostimulatory molecules that induces synergistic protection against influenza A and revealed unanticipated NF-B/AP-1 cooperation that is required for antiviral protection. 

 The application of this framework allows discovery of molecular mechanisms behind dual exposures in highly synergistic or antagonistic phenotype models explored with a diverse array of Omics platforms and experimental conditions. Hence, unlike existing synergy quantification and prediction methods, OBIF is the first phenotype-driven "synergy interrogation" model that supports multiplatform discovery of synergy mechanisms at the molecular level. 

 This study provides both an insight into molecular mechanisms of lung epithelial innate immune responses against respiratory pathogens and a novel tool to study synergistic or antagonistic biological responses from Omics data.

Ivana Yang

Section Chair
Ivana Yang, BS, PhD


Chair: Ivana Yang, BS, PhD
Co-Chair: Rachel Kelly, MPH, PhD

Welcome to the ATS Section on Genetics and Genomics website! Our Section welcomes all members of the ATS, regardless of Assembly affiliation, who are interested in genetics, genomics, and other “omics” technologies (proteomics, metabolomics, metagenomics, etc.) as they relate to the many diseases encompassing the fields of respiratory, critical care, and sleep medicine. Our Section has grown to over 1,000 members making us one of the largest society-based interest groups for genetic and genomic investigators focused on respiratory, critical care, and sleep medicine research. The Section on Genetics and Genomics resides within Allergy, Inflammation, and Immunology, but our current members belong to numerous ATS assemblies reflecting the diverse application of omics approaches across our membership.

Genetics and genomics are at the forefront of scientific research and medical practice into the 21st century, and the number of investigators focusing on these technologies is rapidly expanding. Although the diseases encompassed by the ATS are diverse, omics-based approaches have common, overlapping themes that are beneficial to informing research and the application of cutting-edge technologies. As outlined in our mission statement, we aim to facilitate the exchange of ideas across omics researchers while increasing the knowledge and appreciation of genomics research across the broader ATS community. Section members have impacted the exchange of ideas in ATS through the programming of scientific events including quarterly journal clubs and webinars, workshops, scientific symposia, and the annual curation of over 200 abstracts submitted for the international conference. In addition, members have led and contributed to published research statements and workshops though the ATS, ERS, and NHLBI on lung precision medicine research, high-throughput sequencing, respiratory disease-related healthcare disparities, and the management of severe asthma resulting in national and international impact.

We encourage all clinicians, scientists, post-doctoral fellows, and trainees interested in genetics and genomics research to learn more about our Section. We hope to increase the understanding of omics technologies and their applications to enhance the ability of our scientific community to address impactful research questions which could lead to precision approaches for patient care.

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