G C A T T A C G G C A T genes Article Transcription Factor and lncRNA Regulatory Networks Identify Key Elements in Lung Adenocarcinoma Dan Li 1, William Yang 2, Jialing Zhang 3, Jack Y. Yang 1, Renchu Guan 1 and Mary Qu Yang 1,* 1 Joint Bioinformatics Graduate Program, Department of Information Science, George W. Donaghey College of Engineering and Information Technology, University of Arkansas at Little Rock and University of Arkansas for Medical Sciences, 2801 S. University Ave, Little Rock, AR 72204, USA;
[email protected] (D.L.);
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[email protected]; Tel.: +1-501-683-2035 Received: 19 September 2017; Accepted: 21 December 2017; Published: 5 January 2018 Abstract: Lung cancer is the second most commonly diagnosed carcinoma and is the leading cause of cancer death. Although significant progress has been made towards its understanding and treatment, unraveling the complexities of lung cancer is still hampered by a lack of comprehensive knowledge on the mechanisms underlying the disease. High-throughput and multidimensional genomic data have shed new light on cancer biology. In this study, we developed a network-based approach integrating somatic mutations, the transcriptome, DNA methylation, and protein-DNA interactions to reveal the key regulators in lung adenocarcinoma (LUAD). By combining Bayesian network analysis with tissue-specific transcription factor (TF) and targeted gene interactions, we inferred 15 disease-related core regulatory networks in co-expression gene modules associated with LUAD.