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Moreover, there is little understanding of how the organism regulates its transcriptomic profile, enabling cells to survive in hostile environments. Here, to computationally infer the gene regulatory network for<jats:italic>Mycobacterium abscessus<\/jats:italic>we propose a novel statistical computational modelling approach: BayesIan gene regulatory Networks inferreD via gene coExpression and compaRative genomics (BINDER). In tandem with derived experimental coexpression data, the property of genomic conservation is exploited to probabilistically infer a gene regulatory network in<jats:italic>Mycobacterium abscessus<\/jats:italic>.Inference on regulatory interactions is conducted by combining \u2018primary\u2019 and \u2018auxiliary\u2019 data strata. The data forming the primary and auxiliary strata are derived from RNA-seq experiments and sequence information in the primary organism<jats:italic>Mycobacterium abscessus<\/jats:italic>as well as ChIP-seq data extracted from a related proxy organism<jats:italic>Mycobacterium tuberculosis<\/jats:italic>. The primary and auxiliary data are combined in a hierarchical Bayesian framework, informing the apposite bivariate likelihood function and prior distributions respectively. The inferred relationships provide insight to regulon groupings in<jats:italic>Mycobacterium abscessus<\/jats:italic>.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>We implement BINDER on data relating to a collection of 167,280 regulator-target pairs resulting in the identification of 54 regulator-target pairs, across 5 transcription factors, for which there is strong probability of regulatory interaction.<\/jats:p><\/jats:sec><jats:sec><jats:title>Conclusions<\/jats:title><jats:p>The inferred regulatory interactions provide insight to, and a valuable resource for further studies of, transcriptional control in<jats:italic>Mycobacterium abscessus<\/jats:italic>, and in the family of<jats:italic>Mycobacteriaceae<\/jats:italic>more generally. Further, the developed BINDER framework has broad applicability, useable in settings where computational inference of a gene regulatory network requires integration of data sources derived from both the primary organism of interest and from related proxy organisms.<\/jats:p><\/jats:sec>","DOI":"10.1186\/s12859-019-3042-8","type":"journal-article","created":{"date-parts":[[2019,9,10]],"date-time":"2019-09-10T01:07:15Z","timestamp":1568077635000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":5,"title":["BINDER: computationally inferring a gene regulatory network for Mycobacterium abscessus"],"prefix":"10.1186","volume":"20","author":[{"given":"Patrick M.","family":"Staunton","sequence":"first","affiliation":[]},{"given":"Aleksandra A.","family":"Miranda-CasoLuengo","sequence":"additional","affiliation":[]},{"given":"Brendan J.","family":"Loftus","sequence":"additional","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7713-681X","authenticated-orcid":false,"given":"Isobel Claire","family":"Gormley","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2019,9,10]]},"reference":[{"issue":"4","key":"3042_CR1","doi-asserted-by":"publisher","first-page":"810","DOI":"10.1093\/jac\/dkr578","volume":"67","author":"R. 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