{"id":"https://openalex.org/W2890112540","doi":"https://doi.org/10.1093/bioinformatics/bty613","title":"Hierarchical HotNet: identifying hierarchies of altered subnetworks","display_name":"Hierarchical HotNet: identifying hierarchies of altered subnetworks","publication_year":2018,"publication_date":"2018-07-14","ids":{"openalex":"https://openalex.org/W2890112540","doi":"https://doi.org/10.1093/bioinformatics/bty613","mag":"2890112540","pmid":"https://pubmed.ncbi.nlm.nih.gov/30423088"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty613","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty613","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i972/25702453/bty613.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i972/25702453/bty613.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5061580035","display_name":"Matthew A. Reyna","orcid":"https://orcid.org/0000-0003-4688-7965"},"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":"Matthew A Reyna","raw_affiliation_strings":["Department of Computer Science, Princeton University, Princeton, NJ, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Princeton University, Princeton, NJ, USA","institution_ids":["https://openalex.org/I20089843"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089144841","display_name":"Mark D.M. Leiserson","orcid":"https://orcid.org/0000-0002-1034-4363"},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mark D M Leiserson","raw_affiliation_strings":["Department of Computer Science, University of Maryland, College Park, MD, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Maryland, College Park, MD, USA","institution_ids":["https://openalex.org/I66946132"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5025899028","display_name":"Benjamin J. Raphael","orcid":"https://orcid.org/0000-0003-1274-048X"},"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":"Benjamin J Raphael","raw_affiliation_strings":["Department of Computer Science, Princeton University, Princeton, NJ, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Princeton University, Princeton, NJ, USA","institution_ids":["https://openalex.org/I20089843"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5025899028"],"corresponding_institution_ids":["https://openalex.org/I20089843"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":7.7028,"has_fulltext":false,"cited_by_count":155,"citation_normalized_percentile":{"value":0.98205631,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"34","issue":"17","first_page":"i972","last_page":"i980"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998999834060669,"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":0.9998999834060669,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9994999766349792,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9894000291824341,"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/hierarchy","display_name":"Hierarchy","score":0.5366835594177246},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5141187310218811},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5038859248161316},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.47416558861732483},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4404389560222626},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.36693817377090454},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3404916226863861},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.25123339891433716}],"concepts":[{"id":"https://openalex.org/C31170391","wikidata":"https://www.wikidata.org/wiki/Q188619","display_name":"Hierarchy","level":2,"score":0.5366835594177246},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5141187310218811},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5038859248161316},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.47416558861732483},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4404389560222626},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.36693817377090454},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3404916226863861},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.25123339891433716},{"id":"https://openalex.org/C34447519","wikidata":"https://www.wikidata.org/wiki/Q179522","display_name":"Market economy","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009857","descriptor_name":"Oncogenes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009857","descriptor_name":"Oncogenes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009857","descriptor_name":"Oncogenes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/bty613","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty613","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i972/25702453/bty613.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30423088","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30423088","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:europepmc.org:5083532","is_oa":false,"landing_page_url":"http://europepmc.org/pmc/articles/PMC6129270","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:6129270","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6129270","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty613","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty613","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i972/25702453/bty613.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2847588046","display_name":null,"funder_award_id":"R01HG007069","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3728140873","display_name":null,"funder_award_id":"U24CA211000","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"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"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2890112540.pdf","grobid_xml":"https://content.openalex.org/works/W2890112540.grobid-xml"},"referenced_works_count":86,"referenced_works":["https://openalex.org/W1499476884","https://openalex.org/W1511160855","https://openalex.org/W1542652324","https://openalex.org/W1588911128","https://openalex.org/W1600620728","https://openalex.org/W1966331733","https://openalex.org/W1969917439","https://openalex.org/W1978479505","https://openalex.org/W1981294952","https://openalex.org/W1981711832","https://openalex.org/W1989277387","https://openalex.org/W1990144639","https://openalex.org/W1990223774","https://openalex.org/W1991832623","https://openalex.org/W1992062845","https://openalex.org/W1999734271","https://openalex.org/W2009720434","https://openalex.org/W2011826559","https://openalex.org/W2022495797","https://openalex.org/W2023623233","https://openalex.org/W2024775366","https://openalex.org/W2030644393","https://openalex.org/W2034852369","https://openalex.org/W2038122249","https://openalex.org/W2042794886","https://openalex.org/W2044433401","https://openalex.org/W2055063781","https://openalex.org/W2062069005","https://openalex.org/W2063928888","https://openalex.org/W2070672503","https://openalex.org/W2071818162","https://openalex.org/W2072596762","https://openalex.org/W2081375228","https://openalex.org/W2082887122","https://openalex.org/W2086028466","https://openalex.org/W2088891952","https://openalex.org/W2095319945","https://openalex.org/W2096188852","https://openalex.org/W2100714130","https://openalex.org/W2102140136","https://openalex.org/W2103017472","https://openalex.org/W2104843251","https://openalex.org/W2107946060","https://openalex.org/W2112811019","https://openalex.org/W2114031931","https://openalex.org/W2114533766","https://openalex.org/W2117513900","https://openalex.org/W2117692326","https://openalex.org/W2119454933","https://openalex.org/W2120636855","https://openalex.org/W2124557759","https://openalex.org/W2125118217","https://openalex.org/W2132169351","https://openalex.org/W2132623845","https://openalex.org/W2134508297","https://openalex.org/W2140883620","https://openalex.org/W2141545130","https://openalex.org/W2144940507","https://openalex.org/W2146414563","https://openalex.org/W2149139293","https://openalex.org/W2152430833","https://openalex.org/W2158485828","https://openalex.org/W2171662214","https://openalex.org/W2171878761","https://openalex.org/W2174632898","https://openalex.org/W2218566206","https://openalex.org/W2330727090","https://openalex.org/W2338223499","https://openalex.org/W2436745791","https://openalex.org/W2442835468","https://openalex.org/W2558715006","https://openalex.org/W2592761229","https://openalex.org/W2611492308","https://openalex.org/W2624021832","https://openalex.org/W2737623232","https://openalex.org/W2772435237","https://openalex.org/W2794804602","https://openalex.org/W2963190765","https://openalex.org/W3098742898","https://openalex.org/W4230962320","https://openalex.org/W4237335579","https://openalex.org/W6629754406","https://openalex.org/W6630631696","https://openalex.org/W6635985389","https://openalex.org/W6656611719","https://openalex.org/W6702122975"],"related_works":["https://openalex.org/W2365264209","https://openalex.org/W2509431957","https://openalex.org/W2026999166","https://openalex.org/W1599954583","https://openalex.org/W1992685502","https://openalex.org/W4211007821","https://openalex.org/W2802395037","https://openalex.org/W4389565704","https://openalex.org/W2987420353","https://openalex.org/W1491897707"],"abstract_inverted_index":{"Supplementary":[0],"material":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":16},{"year":2024,"cited_by_count":18},{"year":2023,"cited_by_count":17},{"year":2022,"cited_by_count":17},{"year":2021,"cited_by_count":46},{"year":2020,"cited_by_count":25},{"year":2019,"cited_by_count":10},{"year":2018,"cited_by_count":2}],"updated_date":"2026-03-31T07:56:22.981413","created_date":"2025-10-10T00:00:00"}
