{"id":"https://openalex.org/W2040575110","doi":"https://doi.org/10.1371/journal.pcbi.1000203","title":"Organization of Physical Interactomes as Uncovered by Network Schemas","display_name":"Organization of Physical Interactomes as Uncovered by Network Schemas","publication_year":2008,"publication_date":"2008-10-23","ids":{"openalex":"https://openalex.org/W2040575110","doi":"https://doi.org/10.1371/journal.pcbi.1000203","mag":"2040575110","pmid":"https://pubmed.ncbi.nlm.nih.gov/18949022","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/2561054"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1000203","doi":"https://doi.org/10.1371/journal.pcbi.1000203","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000203","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000203&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","ccf-b","cwts-core","doaj","dongbi-b","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000203&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5029475781","display_name":"Eric Banks","orcid":"https://orcid.org/0000-0001-9615-2372","observed_orcids":["https://orcid.org/0000-0001-9615-2372"]},"institutions":[{"id":"https://openalex.org/I20089843","display_name":"Princeton University","ror":"https://ror.org/00hx57361","country_code":"US","type":"education","lineage":["https://openalex.org/I20089843"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Eric Banks","raw_affiliation_strings":["Department of Computer Science & Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America","Department of Computer Science and Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science & Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America","institution_ids":["https://openalex.org/I20089843"]},{"raw_affiliation_string":"Department of Computer Science and Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America","institution_ids":["https://openalex.org/I20089843"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030199035","display_name":"Elena Nabieva","orcid":"https://orcid.org/0000-0002-4532-6085","observed_orcids":["https://orcid.org/0000-0002-4532-6085"]},"institutions":[{"id":"https://openalex.org/I20089843","display_name":"Princeton University","ror":"https://ror.org/00hx57361","country_code":"US","type":"education","lineage":["https://openalex.org/I20089843"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Elena Nabieva","raw_affiliation_strings":["Department of Computer Science & Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America","Department of Computer Science and Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science & Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America","institution_ids":["https://openalex.org/I20089843"]},{"raw_affiliation_string":"Department of Computer Science and Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America","institution_ids":["https://openalex.org/I20089843"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044565966","display_name":"Bernard Chazelle","orcid":"https://orcid.org/0000-0001-8542-0247","observed_orcids":["https://orcid.org/0000-0001-8542-0247"]},"institutions":[{"id":"https://openalex.org/I20089843","display_name":"Princeton University","ror":"https://ror.org/00hx57361","country_code":"US","type":"education","lineage":["https://openalex.org/I20089843"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bernard Chazelle","raw_affiliation_strings":["Department of Computer Science & Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America","Department of Computer Science and Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science & Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America","institution_ids":["https://openalex.org/I20089843"]},{"raw_affiliation_string":"Department of Computer Science and Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America","institution_ids":["https://openalex.org/I20089843"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5110049309","display_name":"Mona Singh","orcid":"https://orcid.org/0000-0001-8271-6026","observed_orcids":["https://orcid.org/0000-0001-8271-6026"]},"institutions":[{"id":"https://openalex.org/I20089843","display_name":"Princeton University","ror":"https://ror.org/00hx57361","country_code":"US","type":"education","lineage":["https://openalex.org/I20089843"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Mona Singh","raw_affiliation_strings":["Department of Computer Science & Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America","Department of Computer Science and Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science & Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America","institution_ids":["https://openalex.org/I20089843"]},{"raw_affiliation_string":"Department of Computer Science and Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America","institution_ids":["https://openalex.org/I20089843"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5110049309"],"corresponding_institution_ids":["https://openalex.org/I20089843"],"apc_list":{"value":3043,"currency":"USD","value_usd":3043},"apc_paid":{"value":3043,"currency":"USD","value_usd":3043},"fwci":1.1397,"has_fulltext":true,"cited_by_count":18,"citation_normalized_percentile":{"value":0.7500822,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":98},"biblio":{"volume":"4","issue":"10","first_page":"e1000203","last_page":"e1000203"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10064","display_name":"Complex Network Analysis Techniques","score":0.0,"subfield":{"id":"https://openalex.org/subfields/3109","display_name":"Statistical and Nonlinear Physics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/protein-protein-interaction-network","display_name":"protein-protein interaction network","score":0.9259999990463257},{"id":"https://openalex.org/keywords/network-topology","display_name":"network topology","score":0.734000027179718},{"id":"https://openalex.org/keywords/sequence-motifs","display_name":"sequence motifs","score":0.5659999847412109},{"id":"https://openalex.org/keywords/human-interactome","display_name":"human interactome","score":0.8149999976158142},{"id":"https://openalex.org/keywords/protein-function-prediction","display_name":"protein function prediction","score":0.9739999771118164},{"id":"https://openalex.org/keywords/signaling-networks","display_name":"signaling networks","score":0.5550000071525574},{"id":"https://openalex.org/keywords/transportation-networks","display_name":"transportation networks","score":0.8399999737739563}],"concepts":[{"id":"https://openalex.org/C9760119","wikidata":"https://www.wikidata.org/wiki/Q841382","display_name":"Interactome","level":3,"score":0.8571023941040039},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5816690921783447},{"id":"https://openalex.org/C199845137","wikidata":"https://www.wikidata.org/wiki/Q145490","display_name":"Network topology","level":2,"score":0.477333128452301},{"id":"https://openalex.org/C55105296","wikidata":"https://www.wikidata.org/wiki/Q841382","display_name":"Interaction network","level":3,"score":0.4628180265426636},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.45923006534576416},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.44869449734687805},{"id":"https://openalex.org/C11804247","wikidata":"https://www.wikidata.org/wiki/Q896177","display_name":"Protein\u2013protein interaction","level":2,"score":0.4404657483100891},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.40042006969451904},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3331139385700226},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.15487167239189148},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.09191501140594482},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002352","descriptor_name":"Carrier Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D002352","descriptor_name":"Carrier Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D047908","descriptor_name":"Intracellular Signaling Peptides and Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D047908","descriptor_name":"Intracellular Signaling Peptides and Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D054730","descriptor_name":"Protein Interaction Domains and Motifs","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false}],"locations_count":9,"locations":[{"id":"doi:10.1371/journal.pcbi.1000203","doi":"https://doi.org/10.1371/journal.pcbi.1000203","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000203","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000203&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","ccf-b","cwts-core","doaj","dongbi-b","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2561054","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2561054","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmid:18949022","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18949022","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS computational biology","raw_type":"Journal Article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.139.6639","doi":null,"is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.139.6639","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.cs.princeton.edu/~chazelle/pubs/organizationBNCS.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.186.2315","doi":null,"is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.186.2315","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.eecs.berkeley.edu/%7Echristos/evol/compevol_files/networks2.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.818.7892","doi":null,"is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.818.7892","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/27/85/pcbi.1000203.PMC2561054.pdf","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:dc272615be8e4bc7a0c93487ef844742","doi":null,"is_oa":true,"landing_page_url":"https://doaj.org/article/dc272615be8e4bc7a0c93487ef844742","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 4, Iss 10, p e1000203 (2008)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/149469","doi":null,"is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/Organization_of_Physical_Interactomes_as_Uncovered_by_Network_Schemas/149469","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Dataset"},{"id":"mag:2183447371","doi":null,"is_oa":false,"landing_page_url":"http://eecs.berkeley.edu/~christos/evol/compevol_files/networks2.pdf","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1000203","doi":"https://doi.org/10.1371/journal.pcbi.1000203","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000203","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000203&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","ccf-b","cwts-core","doaj","dongbi-b","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G1093351576","display_name":"Predicting and analyzing variation in cellular interactomes","funder_award_id":"R01GM076275","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G1844007987","display_name":"Data-Powered Algorithms","funder_award_id":"0634958","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G1890044234","display_name":null,"funder_award_id":"CA041086","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G2557352603","display_name":null,"funder_award_id":"GM 076275","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G515556356","display_name":"Cellular Pathways of Oncogenesis","funder_award_id":"P01CA041086","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G5971933237","display_name":"SGER: Algorithms for predicting protein function using interaction maps","funder_award_id":"0542187","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6567509300","display_name":null,"funder_award_id":"P50 GM071508","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7483086961","display_name":"Center for Quantitative Biology","funder_award_id":"P50GM071508","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G7872598483","display_name":"PECASE:  Computational Methods for Genome-Wide Prediction of Protein-Protein Interactions","funder_award_id":"0093399","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G9000290534","display_name":null,"funder_award_id":"GM071508","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G9000856415","display_name":"Quantitative and Computational Biology Graduate Program","funder_award_id":"T32HG003284","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2040575110.pdf","grobid_xml":"https://content.openalex.org/works/W2040575110.grobid-xml"},"referenced_works_count":79,"referenced_works":["https://openalex.org/W1486200420","https://openalex.org/W1518994209","https://openalex.org/W1521353297","https://openalex.org/W1604959358","https://openalex.org/W1641749581","https://openalex.org/W1644749979","https://openalex.org/W1820604712","https://openalex.org/W1966421023","https://openalex.org/W1966893452","https://openalex.org/W1968160161","https://openalex.org/W1980334039","https://openalex.org/W1980800453","https://openalex.org/W2003652380","https://openalex.org/W2005812143","https://openalex.org/W2012852001","https://openalex.org/W2019827052","https://openalex.org/W2025871861","https://openalex.org/W2031170804","https://openalex.org/W2043092219","https://openalex.org/W2044926142","https://openalex.org/W2052033556","https://openalex.org/W2054688302","https://openalex.org/W2060584527","https://openalex.org/W2065970966","https://openalex.org/W2066235893","https://openalex.org/W2070672503","https://openalex.org/W2071744657","https://openalex.org/W2073343350","https://openalex.org/W2080922074","https://openalex.org/W2081931663","https://openalex.org/W2097917188","https://openalex.org/W2098045561","https://openalex.org/W2099982459","https://openalex.org/W2102057828","https://openalex.org/W2103017472","https://openalex.org/W2103165401","https://openalex.org/W2104009289","https://openalex.org/W2104315543","https://openalex.org/W2104437738","https://openalex.org/W2106202847","https://openalex.org/W2110699703","https://openalex.org/W2112200469","https://openalex.org/W2114374137","https://openalex.org/W2117035344","https://openalex.org/W2117737004","https://openalex.org/W2118349699","https://openalex.org/W2121507105","https://openalex.org/W2121773288","https://openalex.org/W2126602684","https://openalex.org/W2130381741","https://openalex.org/W2131094547","https://openalex.org/W2131532450","https://openalex.org/W2136316164","https://openalex.org/W2136593687","https://openalex.org/W2139343285","https://openalex.org/W2139939149","https://openalex.org/W2141885858","https://openalex.org/W2145080853","https://openalex.org/W2145889895","https://openalex.org/W2146422967","https://openalex.org/W2148253564","https://openalex.org/W2151176490","https://openalex.org/W2152495216","https://openalex.org/W2153624566","https://openalex.org/W2156737316","https://openalex.org/W2159675211","https://openalex.org/W2161811112","https://openalex.org/W2162481448","https://openalex.org/W2163480486","https://openalex.org/W2163485494","https://openalex.org/W2166468869","https://openalex.org/W2166574880","https://openalex.org/W2167869241","https://openalex.org/W2168157678","https://openalex.org/W2171038145","https://openalex.org/W2171081680","https://openalex.org/W3148170550","https://openalex.org/W4210400672","https://openalex.org/W4237572013"],"related_works":["https://openalex.org/W2183447371","https://openalex.org/W2288395275","https://openalex.org/W2097917188","https://openalex.org/W7096060115","https://openalex.org/W2047693963","https://openalex.org/W2001682816","https://openalex.org/W1883141976","https://openalex.org/W2094203741","https://openalex.org/W2039632890","https://openalex.org/W2104626344"],"abstract_inverted_index":{"Large-scale":[0],"protein-protein":[1],"interaction":[2,47],"networks":[3],"provide":[4],"new":[5],"opportunities":[6],"for":[7,39,168,182],"understanding":[8],"cellular":[9,121,187],"organization":[10],"and":[11,29,68,72,89,96,126,165,185],"functioning.":[12],"We":[13,36,49,84,131],"introduce":[14],"network":[15,82,91,176],"schemas":[16,24,44,60,92,104,115,138,177],"to":[17,53,144],"elucidate":[18],"shared":[19],"mechanisms":[20],"within":[21],"interactomes.":[22],"Network":[23],"specify":[25],"descriptions":[26],"of":[27,32,62,79,87,93,109,120,136,148],"proteins":[28,63],"the":[30,54,133,137,153,161],"topology":[31],"interactions":[33],"among":[34],"them.":[35],"develop":[37],"algorithms":[38],"systematically":[40],"uncovering":[41],"recurring,":[42],"over-represented":[43,90],"in":[45,77,107,152,160],"physical":[46],"networks.":[48,188],"apply":[50],"our":[51],"methods":[52],"S.":[55],"cerevisiae":[56],"interactome,":[57,164],"focusing":[58],"on":[59],"consisting":[61],"described":[64],"via":[65,98],"sequence":[66],"motifs":[67],"molecular":[69],"function":[70],"annotations":[71],"interacting":[73],"with":[74,123,155],"one":[75,78],"another":[76],"four":[80],"basic":[81],"topologies.":[83],"identify":[85],"hundreds":[86],"recurring":[88],"various":[94],"complexity,":[95],"demonstrate":[97],"graph-theoretic":[99],"representations":[100],"how":[101],"more":[102],"complex":[103],"are":[105,150,166,178],"organized":[106],"terms":[108],"their":[110],"lower-order":[111],"constituents.":[112],"The":[113],"uncovered":[114],"span":[116],"a":[117,179],"wide":[118],"range":[119],"activities,":[122],"many":[124],"signaling":[125],"transport":[127],"related":[128],"higher-order":[129],"schemas.":[130],"establish":[132],"functional":[134],"importance":[135],"by":[139],"showing":[140],"that":[141,175],"they":[142,157],"correspond":[143],"functionally":[145],"cohesive":[146],"sets":[147],"proteins,":[149],"enriched":[151],"frequency":[154],"which":[156],"have":[158],"instances":[159],"H.":[162],"sapiens":[163],"useful":[167],"predicting":[169],"protein":[170],"function.":[171],"Our":[172],"findings":[173],"suggest":[174],"powerful":[180],"paradigm":[181],"organizing,":[183],"interrogating,":[184],"annotating":[186]},"counts_by_year":[{"year":2015,"cited_by_count":2},{"year":2013,"cited_by_count":4},{"year":2012,"cited_by_count":3}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}