{"id":"https://openalex.org/W3004222442","doi":"https://doi.org/10.1007/s41109-021-00434-y","title":"Testing biological network motif significance with exponential random graph models","display_name":"Testing biological network motif significance with exponential random graph models","publication_year":2021,"publication_date":"2021-11-22","ids":{"openalex":"https://openalex.org/W3004222442","doi":"https://doi.org/10.1007/s41109-021-00434-y","mag":"3004222442","pmid":"https://pubmed.ncbi.nlm.nih.gov/34841042"},"language":"en","primary_location":{"id":"doi:10.1007/s41109-021-00434-y","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s41109-021-00434-y","pdf_url":"https://appliednetsci.springeropen.com/track/pdf/10.1007/s41109-021-00434-y","source":{"id":"https://openalex.org/S3035517252","display_name":"Applied Network Science","issn_l":"2364-8228","issn":["2364-8228"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319965","host_organization_name":"Springer Nature","host_organization_lineage":["https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Applied Network Science","raw_type":"journal-article"},"type":"preprint","indexed_in":["arxiv","crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://appliednetsci.springeropen.com/track/pdf/10.1007/s41109-021-00434-y","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5001755115","display_name":"Alex Stivala","orcid":"https://orcid.org/0000-0002-2442-4743"},"institutions":[{"id":"https://openalex.org/I57201433","display_name":"Universit\u00e0 della Svizzera italiana","ror":"https://ror.org/03c4atk17","country_code":"CH","type":"education","lineage":["https://openalex.org/I57201433"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Alex Stivala","raw_affiliation_strings":["Institute of Computational Science, Universit\u00e0 della Svizzera italiana, Via Giuseppe Buffi 13, 6900 Lugano, Switzerland"],"raw_orcid":"https://orcid.org/0000-0002-2442-4743","affiliations":[{"raw_affiliation_string":"Institute of Computational Science, Universit\u00e0 della Svizzera italiana, Via Giuseppe Buffi 13, 6900 Lugano, Switzerland","institution_ids":["https://openalex.org/I57201433"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5018108132","display_name":"Alessandro Lomi","orcid":"https://orcid.org/0000-0002-2858-0022"},"institutions":[{"id":"https://openalex.org/I23923803","display_name":"University of Exeter","ror":"https://ror.org/03yghzc09","country_code":"GB","type":"education","lineage":["https://openalex.org/I23923803"]},{"id":"https://openalex.org/I57201433","display_name":"Universit\u00e0 della Svizzera italiana","ror":"https://ror.org/03c4atk17","country_code":"CH","type":"education","lineage":["https://openalex.org/I57201433"]}],"countries":["CH","GB"],"is_corresponding":false,"raw_author_name":"Alessandro Lomi","raw_affiliation_strings":["Institute of Computational Science, Universit\u00e0 della Svizzera italiana, Via Giuseppe Buffi 13, 6900 Lugano, Switzerland","The University of Exeter Business School, Rennes Drive, Exeter, EX4 4PU UK","The University of Exeter Business School, Exeter, UK","Institute of Computational Science, Universit\u00e0 della Svizzera italiana, Lugano, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Computational Science, Universit\u00e0 della Svizzera italiana, Via Giuseppe Buffi 13, 6900 Lugano, Switzerland","institution_ids":["https://openalex.org/I57201433"]},{"raw_affiliation_string":"The University of Exeter Business School, Rennes Drive, Exeter, EX4 4PU UK","institution_ids":["https://openalex.org/I23923803"]},{"raw_affiliation_string":"The University of Exeter Business School, Exeter, UK","institution_ids":["https://openalex.org/I23923803"]},{"raw_affiliation_string":"Institute of Computational Science, Universit\u00e0 della Svizzera italiana, Lugano, Switzerland","institution_ids":["https://openalex.org/I57201433"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":790,"currency":"GBP","value_usd":969},"apc_paid":{"value":790,"currency":"GBP","value_usd":969},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.00172937,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"6","issue":"1","first_page":"91","last_page":"91"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998000264167786,"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":0.9998000264167786,"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":0.9991000294685364,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9958999752998352,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/network-motif","display_name":"Network motif","score":0.7443942427635193},{"id":"https://openalex.org/keywords/exponential-random-graph-models","display_name":"Exponential random graph models","score":0.6629989147186279},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.6483489274978638},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6345088481903076},{"id":"https://openalex.org/keywords/network-analysis","display_name":"Network analysis","score":0.5760887861251831},{"id":"https://openalex.org/keywords/motif","display_name":"Motif (music)","score":0.5402301549911499},{"id":"https://openalex.org/keywords/transitive-relation","display_name":"Transitive relation","score":0.5384291410446167},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.5045772790908813},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.48145192861557007},{"id":"https://openalex.org/keywords/statistical-hypothesis-testing","display_name":"Statistical hypothesis testing","score":0.4508700668811798},{"id":"https://openalex.org/keywords/random-graph","display_name":"Random graph","score":0.4417661428451538},{"id":"https://openalex.org/keywords/statistical-inference","display_name":"Statistical inference","score":0.4403063952922821},{"id":"https://openalex.org/keywords/statistical-model","display_name":"Statistical model","score":0.4383845925331116},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.42460304498672485},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3541531562805176},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.33245009183883667},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.2865549325942993},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2434518039226532},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.11774548888206482},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.11362427473068237}],"concepts":[{"id":"https://openalex.org/C60723933","wikidata":"https://www.wikidata.org/wiki/Q7001080","display_name":"Network motif","level":3,"score":0.7443942427635193},{"id":"https://openalex.org/C30549945","wikidata":"https://www.wikidata.org/wiki/Q5421526","display_name":"Exponential random graph models","level":4,"score":0.6629989147186279},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.6483489274978638},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6345088481903076},{"id":"https://openalex.org/C32946077","wikidata":"https://www.wikidata.org/wiki/Q618079","display_name":"Network analysis","level":2,"score":0.5760887861251831},{"id":"https://openalex.org/C32276052","wikidata":"https://www.wikidata.org/wiki/Q908349","display_name":"Motif (music)","level":2,"score":0.5402301549911499},{"id":"https://openalex.org/C191399111","wikidata":"https://www.wikidata.org/wiki/Q64861","display_name":"Transitive relation","level":2,"score":0.5384291410446167},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.5045772790908813},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.48145192861557007},{"id":"https://openalex.org/C87007009","wikidata":"https://www.wikidata.org/wiki/Q210832","display_name":"Statistical hypothesis testing","level":2,"score":0.4508700668811798},{"id":"https://openalex.org/C47458327","wikidata":"https://www.wikidata.org/wiki/Q910404","display_name":"Random graph","level":3,"score":0.4417661428451538},{"id":"https://openalex.org/C134261354","wikidata":"https://www.wikidata.org/wiki/Q938438","display_name":"Statistical inference","level":2,"score":0.4403063952922821},{"id":"https://openalex.org/C114289077","wikidata":"https://www.wikidata.org/wiki/Q3284399","display_name":"Statistical model","level":2,"score":0.4383845925331116},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.42460304498672485},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3541531562805176},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.33245009183883667},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.2865549325942993},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2434518039226532},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.11774548888206482},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.11362427473068237},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0}],"mesh":[],"locations_count":11,"locations":[{"id":"doi:10.1007/s41109-021-00434-y","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s41109-021-00434-y","pdf_url":"https://appliednetsci.springeropen.com/track/pdf/10.1007/s41109-021-00434-y","source":{"id":"https://openalex.org/S3035517252","display_name":"Applied Network Science","issn_l":"2364-8228","issn":["2364-8228"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319965","host_organization_name":"Springer Nature","host_organization_lineage":["https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Applied Network Science","raw_type":"journal-article"},{"id":"pmid:34841042","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34841042","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,"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":"Applied network science","raw_type":null},{"id":"pmh:oai:arXiv.org:2001.11125","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2001.11125","pdf_url":"https://arxiv.org/pdf/2001.11125","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},{"id":"mag:3004222442","is_oa":true,"landing_page_url":"http://arxiv.org/pdf/2001.11125.pdf","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"arXiv (Cornell University)","raw_type":null},{"id":"pmh:oai:doaj.org/article:de6d7857a1b0409ea623c158788b6ca0","is_oa":true,"landing_page_url":"https://doaj.org/article/de6d7857a1b0409ea623c158788b6ca0","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,"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":"Applied Network Science, Vol 6, Iss 1, Pp 1-27 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8608783","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8608783","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,"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Appl Netw Sci","raw_type":"Text"},{"id":"doi:10.48550/arxiv.2001.11125","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2001.11125","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"},{"id":"doi:10.5281/zenodo.17993363","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.17993363","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.5281/zenodo.17993364","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.17993364","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.6084/m9.figshare.c.5719446","is_oa":true,"landing_page_url":"https://doi.org/10.6084/m9.figshare.c.5719446","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,"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":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.6084/m9.figshare.c.5719446.v1","is_oa":true,"landing_page_url":"https://doi.org/10.6084/m9.figshare.c.5719446.v1","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,"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":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"}],"best_oa_location":{"id":"doi:10.1007/s41109-021-00434-y","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s41109-021-00434-y","pdf_url":"https://appliednetsci.springeropen.com/track/pdf/10.1007/s41109-021-00434-y","source":{"id":"https://openalex.org/S3035517252","display_name":"Applied Network Science","issn_l":"2364-8228","issn":["2364-8228"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319965","host_organization_name":"Springer Nature","host_organization_lineage":["https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Applied Network Science","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","score":0.4000000059604645,"display_name":"Partnerships for the goals"}],"awards":[{"id":"https://openalex.org/G6600006","display_name":null,"funder_award_id":"167326","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G8634868991","display_name":null,"funder_award_id":"VR0261","funder_id":"https://openalex.org/F4320320974","funder_display_name":"University of Melbourne"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320320924","display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung","ror":"https://ror.org/00yjd3n13"},{"id":"https://openalex.org/F4320320974","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3004222442.pdf","grobid_xml":"https://content.openalex.org/works/W3004222442.grobid-xml"},"referenced_works_count":143,"referenced_works":["https://openalex.org/W39300343","https://openalex.org/W229097380","https://openalex.org/W933993264","https://openalex.org/W950821216","https://openalex.org/W1486765142","https://openalex.org/W1573937741","https://openalex.org/W1680396847","https://openalex.org/W1803765581","https://openalex.org/W1808967201","https://openalex.org/W1850772731","https://openalex.org/W1861778536","https://openalex.org/W1903203327","https://openalex.org/W1931483867","https://openalex.org/W1969662550","https://openalex.org/W1970034774","https://openalex.org/W1973260612","https://openalex.org/W1974470274","https://openalex.org/W1976937534","https://openalex.org/W1981500949","https://openalex.org/W1985790185","https://openalex.org/W1986896721","https://openalex.org/W1990201094","https://openalex.org/W2000042664","https://openalex.org/W2003168701","https://openalex.org/W2005883298","https://openalex.org/W2006038621","https://openalex.org/W2011340259","https://openalex.org/W2011353204","https://openalex.org/W2016384948","https://openalex.org/W2020916330","https://openalex.org/W2024818197","https://openalex.org/W2028201018","https://openalex.org/W2037585573","https://openalex.org/W2042151516","https://openalex.org/W2042688172","https://openalex.org/W2052262538","https://openalex.org/W2057815936","https://openalex.org/W2060283905","https://openalex.org/W2061425021","https://openalex.org/W2061901927","https://openalex.org/W2069412834","https://openalex.org/W2069898971","https://openalex.org/W2071321532","https://openalex.org/W2074724691","https://openalex.org/W2078197382","https://openalex.org/W2088428327","https://openalex.org/W2097111859","https://openalex.org/W2097888056","https://openalex.org/W2100256240","https://openalex.org/W2102243804","https://openalex.org/W2103017472","https://openalex.org/W2104540377","https://openalex.org/W2104812688","https://openalex.org/W2107817133","https://openalex.org/W2109110326","https://openalex.org/W2110582765","https://openalex.org/W2110651557","https://openalex.org/W2110699703","https://openalex.org/W2113654464","https://openalex.org/W2117498256","https://openalex.org/W2119998616","https://openalex.org/W2122989928","https://openalex.org/W2123880844","https://openalex.org/W2124533460","https://openalex.org/W2124612503","https://openalex.org/W2125725243","https://openalex.org/W2126602684","https://openalex.org/W2131984349","https://openalex.org/W2132022337","https://openalex.org/W2132160618","https://openalex.org/W2135838082","https://openalex.org/W2136676173","https://openalex.org/W2137786672","https://openalex.org/W2137917513","https://openalex.org/W2143270803","https://openalex.org/W2145067884","https://openalex.org/W2145402497","https://openalex.org/W2145622908","https://openalex.org/W2148308644","https://openalex.org/W2151674698","https://openalex.org/W2153624566","https://openalex.org/W2154199509","https://openalex.org/W2155910443","https://openalex.org/W2157076884","https://openalex.org/W2157520643","https://openalex.org/W2158213791","https://openalex.org/W2160268549","https://openalex.org/W2167602547","https://openalex.org/W2168322240","https://openalex.org/W2301021574","https://openalex.org/W2334311856","https://openalex.org/W2342757705","https://openalex.org/W2344642348","https://openalex.org/W2410775666","https://openalex.org/W2471013496","https://openalex.org/W2472752635","https://openalex.org/W2479435088","https://openalex.org/W2492861567","https://openalex.org/W2534390616","https://openalex.org/W2543295464","https://openalex.org/W2543334566","https://openalex.org/W2553951788","https://openalex.org/W2594308993","https://openalex.org/W2596319736","https://openalex.org/W2619848338","https://openalex.org/W2736628723","https://openalex.org/W2747999862","https://openalex.org/W2754165364","https://openalex.org/W2756065336","https://openalex.org/W2787059807","https://openalex.org/W2788604651","https://openalex.org/W2800502420","https://openalex.org/W2806927426","https://openalex.org/W2897946500","https://openalex.org/W2899942439","https://openalex.org/W2907338510","https://openalex.org/W2917101543","https://openalex.org/W2939918494","https://openalex.org/W2944818307","https://openalex.org/W2949585241","https://openalex.org/W2954731284","https://openalex.org/W2962881083","https://openalex.org/W2990087754","https://openalex.org/W3011579450","https://openalex.org/W3021093342","https://openalex.org/W3021761165","https://openalex.org/W3033386295","https://openalex.org/W3034009801","https://openalex.org/W3089156483","https://openalex.org/W3092430914","https://openalex.org/W3094046734","https://openalex.org/W3094613902","https://openalex.org/W3098344348","https://openalex.org/W3102036813","https://openalex.org/W3103362336","https://openalex.org/W3103377809","https://openalex.org/W3110905475","https://openalex.org/W3110917833","https://openalex.org/W3121379941","https://openalex.org/W3150625129","https://openalex.org/W3196617494","https://openalex.org/W4236956086","https://openalex.org/W4241617604"],"related_works":["https://openalex.org/W2182157305","https://openalex.org/W1976722121","https://openalex.org/W2013291425","https://openalex.org/W3119507950","https://openalex.org/W2066645376","https://openalex.org/W2951104827","https://openalex.org/W2911758388","https://openalex.org/W2074250187","https://openalex.org/W2003333003","https://openalex.org/W54491704","https://openalex.org/W2103547092","https://openalex.org/W3091875991","https://openalex.org/W2104540377","https://openalex.org/W2498086413","https://openalex.org/W2557875857","https://openalex.org/W2886659404","https://openalex.org/W2884075830","https://openalex.org/W1602070668","https://openalex.org/W2149296607","https://openalex.org/W2998344460"],"abstract_inverted_index":{"Abstract":[0],"Analysis":[1],"of":[2,5,16,26,43,66,73,76,85,113,124,135,154,169,193,205],"the":[3,14,40,74,82,92,110,133,157,194],"structure":[4],"biological":[6,32,105],"networks":[7,127],"often":[8],"uses":[9],"statistical":[10,41,67,83],"tests":[11],"to":[12,21,30,39,104,109,137,167],"establish":[13],"over-representation":[15,153,168],"motifs,":[17,45],"which":[18],"are":[19,48,63],"thought":[20],"be":[22,200],"important":[23],"building":[24],"blocks":[25],"such":[27],"networks,":[28,106],"related":[29],"their":[31],"functions.":[33],"However,":[34],"there":[35,47],"is":[36],"disagreement":[37],"as":[38,166,202],"significance":[42,84],"these":[44],"and":[46,145,160,178],"potential":[49],"problems":[50],"with":[51],"standard":[52],"methods":[53,79],"for":[54,80],"estimating":[55,114],"this":[56],"significance.":[57],"Exponential":[58],"random":[59],"graph":[60],"models":[61,151],"(ERGMs)":[62],"a":[64,179,203],"class":[65],"model":[68,115],"that":[69,191],"can":[70,199],"overcome":[71],"some":[72],"shortcomings":[75],"commonly":[77],"used":[78],"testing":[81],"motifs.":[86],"ERGMs":[87],"were":[88],"first":[89],"introduced":[90],"into":[91],"bioinformatics":[93],"literature":[94],"over":[95],"10":[96],"years":[97],"ago":[98],"but":[99],"have":[100],"had":[101],"limited":[102],"application":[103,134],"possibly":[107],"due":[108],"practical":[111,129],"difficulty":[112],"parameters.":[116],"Advances":[117],"in":[118,128,156,174],"estimation":[119],"algorithms":[120],"now":[121],"afford":[122],"analysis":[123],"much":[125],"larger":[126],"time.":[130],"We":[131,183],"illustrate":[132],"ERGM":[136,150],"both":[138],"an":[139,175],"undirected":[140],"protein\u2013protein":[141],"interaction":[142],"(PPI)":[143],"network":[144],"directed":[146],"gene":[147],"regulatory":[148,181],"networks.":[149],"indicate":[152],"triangles":[155,171],"PPI":[158],"network,":[159],"confirm":[161],"results":[162],"from":[163],"previous":[164,188],"research":[165,189],"transitive":[170],"(feed-forward":[172],"loop)":[173,198],"E.":[176],"coli":[177],"yeast":[180],"network.":[182],"also":[184],"confirm,":[185],"using":[186],"ERGMs,":[187],"showing":[190],"under-representation":[192],"cyclic":[195],"triangle":[196],"(feedback":[197],"explained":[201],"consequence":[204],"other":[206],"topological":[207],"features.":[208]},"counts_by_year":[],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2023-12-14T00:00:00"}
