{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,15]],"date-time":"2026-06-15T13:46:43Z","timestamp":1781531203189,"version":"3.54.5"},"reference-count":73,"publisher":"Oxford University Press (OUP)","issue":"8","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2011,4,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: With the growing availability of high-throughput protein\u2013protein interaction (PPI) data, it has become possible to consider how a protein's local or global network characteristics predict its function.<\/jats:p>\n               <jats:p>Results: We introduce a graph-theoretic approach that identifies key regulatory proteins in an organism by analyzing proteins' local PPI network structure. We apply the method to the yeast genome and describe several properties of the resulting set of regulatory hubs. Finally, we demonstrate how the identified hubs and putative target gene sets can be used to identify causative, functional regulators of differential gene expression linked to human disease.<\/jats:p>\n               <jats:p>Availability: Code is available at http:\/\/bcb.cs.tufts.edu\/hubcomps.<\/jats:p>\n               <jats:p>Contact: \u00a0fox.andrew.d@gmail.com; slonim@cs.tufts.edu<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btr099","type":"journal-article","created":{"date-parts":[[2011,3,3]],"date-time":"2011-03-03T02:00:16Z","timestamp":1299117616000},"page":"1135-1142","source":"Crossref","is-referenced-by-count":31,"title":["Connectedness of PPI network neighborhoods identifies regulatory hub proteins"],"prefix":"10.1093","volume":"27","author":[{"given":"Andrew D.","family":"Fox","sequence":"first","affiliation":[{"name":"1 Department of Computer Science, Tufts University, Medford, MA 02155 and 2Department of Pathology, Tufts University School of Medicine, Boston, MA 02111, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Benjamin J.","family":"Hescott","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, Tufts University, Medford, MA 02155 and 2Department of Pathology, Tufts University School of Medicine, Boston, MA 02111, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anselm C.","family":"Blumer","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, Tufts University, Medford, MA 02155 and 2Department of Pathology, Tufts University School of Medicine, Boston, MA 02111, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Donna K.","family":"Slonim","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, Tufts University, Medford, MA 02155 and 2Department of Pathology, Tufts University School of Medicine, Boston, MA 02111, USA"},{"name":"1 Department of Computer Science, Tufts University, Medford, MA 02155 and 2Department of Pathology, Tufts University School of Medicine, Boston, MA 02111, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2011,3,2]]},"reference":[{"key":"2023061311473675700_B1","first-page":"1","article-title":"Discovering biological guilds through topological abstraction","volume":"2006","author":"Alterovitz","year":"2006","journal-title":"AMIA Annu. 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