{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,11,8]],"date-time":"2025-11-08T12:59:28Z","timestamp":1762606768057},"reference-count":11,"publisher":"Oxford University Press (OUP)","issue":"18","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2016,9,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: \u00a0RANKS is a flexible software package that can be easily applied to any bioinformatics task formalizable as ranking of nodes with respect to a property given as a label, such as automated protein function prediction, gene disease prioritization and drug repositioning. To this end RANKS provides an efficient and easy-to-use implementation of kernelized score functions, a semi-supervised algorithmic scheme embedding both local and global learning strategies for the analysis of biomolecular networks. To facilitate comparative assessment, baseline network-based methods, e.g. label propagation and random walk algorithms, have also been implemented.<\/jats:p>\n               <jats:p>Availability and Implementation: The package is available from CRAN: https:\/\/cran.r-project.org\/. The package is written in R, except for the most computationally intensive functionalities which are implemented in C.<\/jats:p>\n               <jats:p>Contact: \u00a0valentini@di.unimi.it<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btw235","type":"journal-article","created":{"date-parts":[[2016,6,3]],"date-time":"2016-06-03T01:12:51Z","timestamp":1464916371000},"page":"2872-2874","source":"Crossref","is-referenced-by-count":30,"title":["<i>RANKS<\/i>: a flexible tool for node label ranking and classification in biological networks"],"prefix":"10.1093","volume":"32","author":[{"given":"Giorgio","family":"Valentini","sequence":"first","affiliation":[{"name":"1 AnacletoLab, Department of Computer Science, University of Milan, 20135 Milan, Italy"}]},{"given":"Giuliano","family":"Armano","sequence":"additional","affiliation":[{"name":"2 Department of Electric and Electronic Engineering, University of Cagliari, 09123 Cagliari, Italy"}]},{"given":"Marco","family":"Frasca","sequence":"additional","affiliation":[{"name":"1 AnacletoLab, Department of Computer Science, University of Milan, 20135 Milan, Italy"}]},{"given":"Jianyi","family":"Lin","sequence":"additional","affiliation":[{"name":"1 AnacletoLab, Department of Computer Science, University of Milan, 20135 Milan, Italy"}]},{"given":"Marco","family":"Mesiti","sequence":"additional","affiliation":[{"name":"1 AnacletoLab, Department of Computer Science, University of Milan, 20135 Milan, Italy"}]},{"given":"Matteo","family":"Re","sequence":"additional","affiliation":[{"name":"1 AnacletoLab, Department of Computer Science, University of Milan, 20135 Milan, Italy"}]}],"member":"286","published-online":{"date-parts":[[2016,6,2]]},"reference":[{"key":"2023020113392134800_btw235-B1","doi-asserted-by":"crossref","first-page":"1129","DOI":"10.1093\/bioinformatics\/btq089","article-title":"BioNet: an R-Package for the functional analysis of biological networks","volume":"26","author":"Beisser","year":"2010","journal-title":"Bioinformatics"},{"key":"2023020113392134800_btw235-B2","doi-asserted-by":"crossref","first-page":"e1003808","DOI":"10.1371\/journal.pcbi.1003808","article-title":"Santa: Quantifying the functional content of molecular networks","volume":"10","author":"Cornish","year":"2014","journal-title":"Plos Comput. 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