ArticlePacific Symposium on Biocomputing. Pacific Symposium on Biocomputing2011
Systems biology analyses of gene expression and genome wide association study data in obstructive sleep apnea.
Article in Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers, 2 of them syntheses that pooled it.
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Who cites it
20 citing papers in PubMed, 2 syntheses or guidelines pooled it, 31 citations in OpenAlex.
- Finding lost genes in GWAS via integrative-omics analysis reveals novel sub-networks associated with preterm birth.Human molecular genetics · 2016Pooled it
- The association of 5-HT2A, 5-HTT, and LEPR polymorphisms with obstructive sleep apnea syndrome: a systematic review and meta-analysis.PloS one · 2014Pooled it
- Identification and Validation of Prognostic Factors of Lipid Metabolism in Obstructive Sleep Apnea.Frontiers in genetics · 2021Article
- Study of Osteoarthritis-Related Hub Genes Based on Bioinformatics Analysis.BioMed research international · 2020Article
- Integrated microRNA and mRNA network analysis of the human myometrial transcriptome in the transition from quiescence to labor.Biology of reproduction · 2018Article
- Personalised medicine in sleep respiratory disorders: focus on obstructive sleep apnoea diagnosis and treatment.European respiratory review : an official journal of the European Respiratory Society · 2017Review
- Genomics of human pulmonary tuberculosis: from genes to pathways.Current genetic medicine reports · 2017Article
- IODNE: An integrated optimization method for identifying the deregulated subnetwork for precision medicine in cancer.CPT: pharmacometrics & systems pharmacology · 2017Review
- Review
- The Role of Big Data in the Management of Sleep-Disordered Breathing.Sleep medicine clinics · 2016Review
- The role inflammatory response genes in obstructive sleep apnea syndrome: a review.Sleep & breathing = Schlaf & Atmung · 2016Review
- MOBAS: identification of disease-associated protein subnetworks using modularity-based scoring.EURASIP journal on bioinformatics & systems biology · 2015Article
- Genomic convergence and network analysis approach to identify candidate genes in Alzheimer's disease.BMC genomics · 2014Article
- Network.assisted analysis to prioritize GWAS results: principles, methods and perspectives.Human genetics · 2014Review
- A pathway-based analysis on the effects of obstructive sleep apnea in modulating visceral fat transcriptome.Sleep · 2013Article
- Risk factors of obstructive sleep apnea among Nigerian outpatients.Brazilian journal of otorhinolaryngology · 2012Article
- Network biology methods integrating biological data for translational science.Briefings in bioinformatics · 2012Review
- Gene interaction enrichment and network analysis to identify dysregulated pathways and their interactions in complex diseases.BMC systems biology · 2012Article
- Integrative analysis of common neurodegenerative diseases using gene association, interaction networks and mRNA expression data.AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science · 2012Article
- Identification of candidate genes related to bovine marbling using protein-protein interaction networks.International journal of biological sciences · 2011Article
Corrections and comments
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Authors and funding
13 authors at 8 institutions in 1 country.
Funding
Abstract
The precise molecular etiology of obstructive sleep apnea (OSA) is unknown; however recent research indicates that several interconnected aberrant pathways and molecular abnormalities are contributors to OSA. Identifying the genes and pathways associated with OSA can help to expand our understanding of the risk factors for the disease as well as provide new avenues for potential treatment. Towards these goals, we have integrated relevant high dimensional data from various sources, such as genome-wide expression data (microarray), protein-protein interaction (PPI) data and results from genome-wide association studies (GWAS) in order to define sub-network elements that connect some of the known pathways related to the disease as well as define novel regulatory modules related to OSA. Two distinct approaches are applied to identify sub-networks significantly associated with OSA. In the first case we used a biased approach based on sixty genes/proteins with known associations with sleep disorders and/or metabolic disease to seed a search using commercial software to discover networks associated with disease followed by information theoretic (mutual information) scoring of the sub-networks. In the second case we used an unbiased approach and generated an interactome constructed from publicly available gene expression profiles and PPI databases, followed by scoring of the network with p-values from GWAS data derived from OSA patients to uncover sub-networks significant for the disease phenotype. A comparison of the approaches reveals a number of proteins that have been previously known to be associated with OSA or sleep. In addition, our results indicate a novel association of Phosphoinositide 3-kinase, the STAT family of proteins and its related pathways with OSA.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.