{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,8,3]],"date-time":"2024-08-03T18:14:31Z","timestamp":1722708871273},"reference-count":9,"publisher":"Oxford University Press (OUP)","issue":"2","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2012,1,15]]},"abstract":"Abstract<\/jats:title>\n Summary: Biological network analysis can be enhanced by examining the connections between nodes and the rest of the network. For this purpose we have developed GraphletCounter, an open-source software tool for computing graphlet degree signatures that can operate on its own or as a plug-in to the network analysis environment Cytoscape. A unique characteristic of GraphletCounter is its ability to compute the graphlet signatures of network motifs, which can be specified by files generated by the motif-finding tool mfinder. GraphletCounter displays graphlet signatures for visual inspection within Cytoscape, and can output graphlet data for integration with larger workflows.<\/jats:p>\n Availability and implementation: GraphletCounter is implemented in Java. It can be downloaded from the Cytoscape plugin repository, and is also available at http:\/\/sonmezsysbio.org\/software\/ graphletcounter.<\/jats:p>\n Contact: \u00a0whelanch@ohsu.edu<\/jats:p>","DOI":"10.1093\/bioinformatics\/btr637","type":"journal-article","created":{"date-parts":[[2011,12,8]],"date-time":"2011-12-08T01:24:20Z","timestamp":1323307460000},"page":"290-291","source":"Crossref","is-referenced-by-count":9,"title":["Computing graphlet signatures of network nodes and motifs in Cytoscape with GraphletCounter"],"prefix":"10.1093","volume":"28","author":[{"given":"Christopher","family":"Whelan","sequence":"first","affiliation":[{"name":"Biomedical Engineering, Oregon Health and Science University, 20000 NW Walker Road, Beaverton, OR 97006, USA"}]},{"given":"Kemal","family":"S\u00f6nmez","sequence":"additional","affiliation":[{"name":"Biomedical Engineering, Oregon Health and Science University, 20000 NW Walker Road, Beaverton, OR 97006, USA"}]}],"member":"286","published-online":{"date-parts":[[2011,12,6]]},"reference":[{"key":"2023012511492949000_B1","doi-asserted-by":"crossref","first-page":"1746","DOI":"10.1093\/bioinformatics\/bth163","article-title":"Efficient sampling algorithm for estimating subgraph concentrations and detecting network motifs","volume":"20","author":"Kashtan","year":"2004","journal-title":"Bioinformatics"},{"key":"2023012511492949000_B2","doi-asserted-by":"crossref","first-page":"197","DOI":"10.1016\/j.jmb.2003.09.049","article-title":"The coherent feedforward loop serves as a sign-sensitive delay element in transcription networks","volume":"334","author":"Mangan","year":"2003","journal-title":"J. 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