{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,9,13]],"date-time":"2025-09-13T15:47:06Z","timestamp":1757778426411},"reference-count":26,"publisher":"World Scientific Pub Co Pte Ltd","issue":"02","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["J. Bioinform. Comput. Biol."],"published-print":{"date-parts":[[2017,4]]},"abstract":"<jats:p> Ionizing radiation (IR) causing damages to Deoxyribonucleic acid (DNA) constitutes a broad range of base damage and double strand break, and thereby, it induces the operation of relevant signaling pathways such as DNA repair, cell cycle control, and cell apoptosis. The goal of this paper is to study how the exposure to low dose radiation affects the human body by observing the signaling pathway associated with Ataxia Telangiectasia mutated (ATM) using Reverse-Phase Protein Array (RPPA) and isogenic human Ataxia Telangiectasia (A-T) cells under different amounts and durations of IR exposure. In order to verify which proteins could be involved in a DNA damage-caused pathway, only proteins that highly interact with each other under IR are selected by using correlation coefficient. The pathway inference is derived from learning Bayesian networks in combination with prior knowledge such as Protein\u2013Protein Interactions (PPIs) and signaling pathways from well-known databases. Learning Bayesian networks is based on a score and search scheme that provides the highest scored network structure given a score function, and the prior knowledge is included in the score function as a prior probability by using Dempster\u2013Shafer theory (DST). In this way, the inferred network can be more likely to be similar to already discovered pathways and consistent with confirmed PPIs for more reliable inference. The experimental results show which proteins are involved in signaling pathways under IR, how the inferred pathways are different under low and high doses of IR, and how the selected proteins regulate each other in the inferred pathways. As our main contribution, overall results confirm that low dose IR could cause DNA damage and thereby induce and affect related signaling pathways such as apoptosis, cell cycle, and DNA repair. <\/jats:p>","DOI":"10.1142\/s0219720017500068","type":"journal-article","created":{"date-parts":[[2017,2,17]],"date-time":"2017-02-17T06:44:00Z","timestamp":1487313840000},"page":"1750006","source":"Crossref","is-referenced-by-count":5,"title":["Effects of low dose ionizing radiation on DNA damage-caused pathways by reverse-phase protein array and Bayesian networks"],"prefix":"10.1142","volume":"15","author":[{"given":"Dong-Chul","family":"Kim","sequence":"first","affiliation":[{"name":"Department of Computer Science, University of Texas \u2014 Rio Grande Valley, Edinburg, TX78539, USA"}]},{"given":"Mingon","family":"Kang","sequence":"additional","affiliation":[{"name":"Department of Computer Science, Kennesaw State University, Marietta, GA 30060, USA"}]},{"given":"Ashis","family":"Biswas","sequence":"additional","affiliation":[{"name":"Department of Computer Science and Engineering, University of Texas at Arlington, Arlington, TX76019, USA"}]},{"given":"Chin-Rang","family":"Yang","sequence":"additional","affiliation":[{"name":"Epithelial Systems Biology Laboratory, Systems Biology Center, National Heart, Lung, and Blood Institute, National Institutes of Health, Bethesda, MD 20814, USA"}]},{"given":"Xiaoyu","family":"Wang","sequence":"additional","affiliation":[{"name":"Simmons Comprehensive Cancer Center, University of Texas Southwestern Medical Center, Dallas, TX75390, USA"}]},{"given":"Jean X.","family":"Gao","sequence":"additional","affiliation":[{"name":"Department of Computer Science and Engineering, University of Texas at Arlington, Arlington, TX76019, 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