{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,16]],"date-time":"2026-03-16T11:53:52Z","timestamp":1773662032573,"version":"3.50.1"},"reference-count":15,"publisher":"Oxford University Press (OUP)","issue":"8","license":[{"start":{"date-parts":[[2017,11,23]],"date-time":"2017-11-23T00:00:00Z","timestamp":1511395200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/about_us\/legal\/notices"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["61772552 and No.61622213"],"award-info":[{"award-number":["61772552 and No.61622213"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018,4,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Studying the controllability of biomolecular networks can result in profound knowledge about molecular biological systems. However, there is no comprehensive and easy-to-use platform for analyzing controllability of biomolecular networks although various algorithms for analyzing complex network controllability have been proposed recently. In this application note, we develop the CytoCtrlAnalyser which is a Cytoscape app to provide a comprehensive platform for analyzing controllability of biomolecular networks. Nine algorithms have been integrated in CytoCtrlAnalyser. With network topologies and customized control settings imported into CytoCtrlAnalyser, users can identify the steering nodes which should be actuated by input control signals for achieving different control objectives as well as investigate the importance of nodes from different perspectives in the controllability of networks. CytoCtrlAnalyser offers a tool for many promising applications, such as identification of potential drug targets or biologically important nodes in biomolecular networks.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>Freely available for downloading at http:\/\/apps.cytoscape.org\/apps\/cytoctrlanalyser.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btx764","type":"journal-article","created":{"date-parts":[[2017,11,22]],"date-time":"2017-11-22T20:13:53Z","timestamp":1511381633000},"page":"1428-1430","source":"Crossref","is-referenced-by-count":22,"title":["CytoCtrlAnalyser: a Cytoscape app for biomolecular network controllability analysis"],"prefix":"10.1093","volume":"34","author":[{"given":"Lin","family":"Wu","sequence":"first","affiliation":[{"name":"Division of Biomedical Engineering, University of Saskatchewan, Saskatoon, SK, Canada"}]},{"given":"Min","family":"Li","sequence":"additional","affiliation":[{"name":"School of Information Science and Engineering, Central South University, Changsha, Hunan, China"}]},{"given":"Jianxin","family":"Wang","sequence":"additional","affiliation":[{"name":"School of Information Science and Engineering, Central South University, Changsha, Hunan, China"}]},{"given":"Fang-Xiang","family":"Wu","sequence":"additional","affiliation":[{"name":"Division of Biomedical Engineering, University of Saskatchewan, Saskatoon, SK, Canada"},{"name":"Department of Mechanical Engineering, University of Saskatchewan, Saskatoon, SK, Canada"}]}],"member":"286","published-online":{"date-parts":[[2017,11,23]]},"reference":[{"key":"2023012713011581100_btx764-B1","doi-asserted-by":"crossref","first-page":"2354.","DOI":"10.1038\/srep02354","article-title":"Control capacity and a random sampling method in exploring controllability of complex networks","volume":"3","author":"Jia","year":"2013","journal-title":"Sci. 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Nanobiosci"},{"key":"2023012713011581100_btx764-B12","doi-asserted-by":"crossref","first-page":"116","DOI":"10.1049\/iet-syb.2015.0077","article-title":"Minimum steering node set of complex networks and its applications to biomolecular networks","volume":"10","author":"Wu","year":"2016","journal-title":"IET Syst. Biol"},{"key":"2023012713011581100_btx764-B13","first-page":"229","author":"Wu","year":"2016"},{"key":"2023012713011581100_btx764-B14","doi-asserted-by":"crossref","first-page":"326","DOI":"10.1109\/TNB.2017.2705106","article-title":"Biomolecular network controllability with drug binding information","volume":"16","author":"Wu","year":"2017","journal-title":"IEEE Trans. Nanobiosci"},{"key":"2023012713011581100_btx764-B15","doi-asserted-by":"crossref","first-page":"5130","DOI":"10.1073\/pnas.1522586113","article-title":"Part mutual information for quantifying direct associations in networks","volume":"113","author":"Zhao","year":"2016","journal-title":"Proc. Natl. Acad. Sci. 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