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However, omics approaches based on genome-wide expression analysis data comparing one differing condition (e.g. complex disease patients and normal subjects) did not investigate the dynamics and inter-pathway cross-communication that are dependent on cellular contexts. Therefore, we introduce a new computational omics approach for discovering signal transduction pathways regulated by transcription and transcriptional regulations between pathways in signaling networks that are dependent on cellular contexts, especially focusing on a transcription-mediated mechanism of inter-pathway cross-communication.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Results<\/jats:title>\n            <jats:p>Applied to dendritic cells treated with lipopolysaccharide, our analysis well depicted how dendritic cells respond to the treatment through transcriptional regulations between signal transduction pathways in dendritic cell maturation and T cell activation.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Conclusions<\/jats:title>\n            <jats:p>Our new approach helps to understand the underlying biological phenomenon of expression data (e.g. complex diseases such as cancer) by providing a graphical network which shows transcriptional regulations between signal transduction pathways. The software programs are available upon request.<\/jats:p>\n          <\/jats:sec>","DOI":"10.1186\/1471-2105-12-19","type":"journal-article","created":{"date-parts":[[2011,1,19]],"date-time":"2011-01-19T11:10:25Z","timestamp":1295435425000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":9,"title":["Context-dependent transcriptional regulations between signal transduction pathways"],"prefix":"10.1186","volume":"12","author":[{"given":"Sohyun","family":"Hwang","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sangwoo","family":"Kim","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Heesung","family":"Shin","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Doheon","family":"Lee","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2011,1,13]]},"reference":[{"key":"4336_CR1","volume-title":"Molecular Biology of the Cell","author":"B Alberts","year":"2002","unstructured":"Alberts B, Johnson A, Lewis J, Raff M, Roberts K, Walter P: Molecular Biology of the Cell. 4th edition. 2002.","edition":"4"},{"key":"4336_CR2","doi-asserted-by":"publisher","first-page":"333","DOI":"10.1038\/ni.1713","volume":"10","author":"JS Bezbradica","year":"2009","unstructured":"Bezbradica JS, Medzhitov R: Integration of cytokine and heterologous receptor signaling pathways. 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