{"id":"https://openalex.org/W2749320391","doi":"https://doi.org/10.1093/bib/bbx091","title":"Pathway enrichment analysis approach based on topological structure and updated annotation of pathway","display_name":"Pathway enrichment analysis approach based on topological structure and updated annotation of pathway","publication_year":2017,"publication_date":"2017-07-09","ids":{"openalex":"https://openalex.org/W2749320391","doi":"https://doi.org/10.1093/bib/bbx091","mag":"2749320391","pmid":"https://pubmed.ncbi.nlm.nih.gov/28968630"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbx091","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbx091","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5089477321","display_name":"Qian Yang","orcid":"https://orcid.org/0000-0002-2405-2396"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qian Yang","raw_affiliation_strings":["College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China"],"affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101963343","display_name":"Shuyuan Wang","orcid":"https://orcid.org/0000-0002-4789-0210"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shuyuan Wang","raw_affiliation_strings":["College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China"],"affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100911907","display_name":"Enyu Dai","orcid":null},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Enyu Dai","raw_affiliation_strings":["College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China"],"affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067575166","display_name":"Shunheng Zhou","orcid":"https://orcid.org/0000-0003-0299-2667"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shunheng Zhou","raw_affiliation_strings":["College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China"],"affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026987243","display_name":"Dianming Liu","orcid":null},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dianming Liu","raw_affiliation_strings":["College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China"],"affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100638947","display_name":"Haizhou Liu","orcid":"https://orcid.org/0000-0001-5111-5295"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Haizhou Liu","raw_affiliation_strings":["College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China"],"affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040745136","display_name":"Qianqian Meng","orcid":"https://orcid.org/0000-0002-6403-1768"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qianqian Meng","raw_affiliation_strings":["College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China"],"affiliations":[{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052042524","display_name":"Bin Jiang","orcid":"https://orcid.org/0000-0002-1156-2557"},"institutions":[{"id":"https://openalex.org/I9842412","display_name":"Nanjing University of Aeronautics and Astronautics","ror":"https://ror.org/01scyh794","country_code":"CN","type":"education","lineage":["https://openalex.org/I9842412"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Bin Jiang","raw_affiliation_strings":["College of Automation Engineering, Nanjing University of Aeronautics and Astronautics, Nanjing, People\u2019s Republic of China"],"affiliations":[{"raw_affiliation_string":"College of Automation Engineering, Nanjing University of Aeronautics and Astronautics, Nanjing, People\u2019s Republic of China","institution_ids":["https://openalex.org/I9842412"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5041957721","display_name":"Wei Jiang","orcid":"https://orcid.org/0000-0003-1591-4721"},"institutions":[{"id":"https://openalex.org/I9842412","display_name":"Nanjing University of Aeronautics and Astronautics","ror":"https://ror.org/01scyh794","country_code":"CN","type":"education","lineage":["https://openalex.org/I9842412"]},{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Wei Jiang","raw_affiliation_strings":["College of Automation Engineering, Nanjing University of Aeronautics and Astronautics, Nanjing, People\u2019s Republic of China","College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China"],"affiliations":[{"raw_affiliation_string":"College of Automation Engineering, Nanjing University of Aeronautics and Astronautics, Nanjing, People\u2019s Republic of China","institution_ids":["https://openalex.org/I9842412"]},{"raw_affiliation_string":"College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, People\u2019s Republic of China","institution_ids":["https://openalex.org/I156144747"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5041957721","https://openalex.org/A5052042524"],"corresponding_institution_ids":["https://openalex.org/I156144747","https://openalex.org/I9842412"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":2.0585,"has_fulltext":false,"cited_by_count":54,"citation_normalized_percentile":{"value":0.8746769,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"20","issue":"1","first_page":"168","last_page":"177"},"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9832000136375427,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9757000207901001,"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/pathway-analysis","display_name":"Pathway analysis","score":0.6685929298400879},{"id":"https://openalex.org/keywords/kegg","display_name":"KEGG","score":0.6476719975471497},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5777983069419861},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5266968011856079},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.48637655377388},{"id":"https://openalex.org/keywords/centrality","display_name":"Centrality","score":0.4224432110786438},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.358934611082077},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3188149929046631},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.23523038625717163},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.19360288977622986},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.12031829357147217},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.09987077116966248},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.07562130689620972}],"concepts":[{"id":"https://openalex.org/C2779230013","wikidata":"https://www.wikidata.org/wiki/Q25303877","display_name":"Pathway analysis","level":4,"score":0.6685929298400879},{"id":"https://openalex.org/C152724338","wikidata":"https://www.wikidata.org/wiki/Q909442","display_name":"KEGG","level":5,"score":0.6476719975471497},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5777983069419861},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5266968011856079},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.48637655377388},{"id":"https://openalex.org/C53811970","wikidata":"https://www.wikidata.org/wiki/Q5062194","display_name":"Centrality","level":2,"score":0.4224432110786438},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.358934611082077},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3188149929046631},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.23523038625717163},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.19360288977622986},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.12031829357147217},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.09987077116966248},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.07562130689620972},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","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":"D008297","descriptor_name":"Male","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008297","descriptor_name":"Male","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008297","descriptor_name":"Male","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","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":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D063646","descriptor_name":"Carcinogenesis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D063646","descriptor_name":"Carcinogenesis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D063646","descriptor_name":"Carcinogenesis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbx091","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbx091","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:28968630","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28968630","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":"Briefings in bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.4399999976158142}],"awards":[{"id":"https://openalex.org/G3239725446","display_name":null,"funder_award_id":"61571169","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":41,"referenced_works":["https://openalex.org/W1815643724","https://openalex.org/W1968793720","https://openalex.org/W1975441976","https://openalex.org/W1977576447","https://openalex.org/W1982387674","https://openalex.org/W1987520879","https://openalex.org/W2008569137","https://openalex.org/W2013355610","https://openalex.org/W2019801716","https://openalex.org/W2031334707","https://openalex.org/W2031701492","https://openalex.org/W2049344510","https://openalex.org/W2060013771","https://openalex.org/W2063551564","https://openalex.org/W2072431132","https://openalex.org/W2099085926","https://openalex.org/W2103267380","https://openalex.org/W2108096229","https://openalex.org/W2109115947","https://openalex.org/W2110687686","https://openalex.org/W2114104545","https://openalex.org/W2122683221","https://openalex.org/W2126997165","https://openalex.org/W2130410032","https://openalex.org/W2132992030","https://openalex.org/W2142720308","https://openalex.org/W2146980885","https://openalex.org/W2152827927","https://openalex.org/W2154528610","https://openalex.org/W2155407519","https://openalex.org/W2157838823","https://openalex.org/W2160697532","https://openalex.org/W2161342739","https://openalex.org/W2163007050","https://openalex.org/W2163677672","https://openalex.org/W2165561610","https://openalex.org/W2281144979","https://openalex.org/W2341128841","https://openalex.org/W2410637760","https://openalex.org/W2517051411","https://openalex.org/W2522456254"],"related_works":["https://openalex.org/W1964572291","https://openalex.org/W4387948744","https://openalex.org/W4229078645","https://openalex.org/W2982298724","https://openalex.org/W2378339845","https://openalex.org/W2529344260","https://openalex.org/W2119683611","https://openalex.org/W2151866902","https://openalex.org/W2794999358","https://openalex.org/W2996680049"],"abstract_inverted_index":{"Pathway":[0],"enrichment":[1,48,60,84,98,103],"analysis":[2,49,61,85,99,109],"has":[3],"been":[4],"widely":[5,45,81],"used":[6,46,82],"to":[7,14,176],"identify":[8],"cancer":[9,124,135],"risk":[10,136],"pathways,":[11],"and":[12,31,52,68,92,105,125,147,186],"contributes":[13],"elucidating":[15],"the":[16,23,27,33,43,144,148,158,167,190],"mechanism":[17],"of":[18,22,72,117,150,157,166],"tumorigenesis.":[19],"However,":[20],"most":[21],"existing":[24,44,145],"approaches":[25,50],"use":[26],"outdated":[28],"pathway":[29,47,59,83,102,107,184],"information":[30,185],"neglect":[32],"complex":[34],"gene":[35,96,114],"interactions":[36],"in":[37,74,161],"pathway.":[38],"Here,":[39],"we":[40,54,131,171],"first":[41],"reviewed":[42],"briefly,":[51],"then,":[53],"proposed":[55],"a":[56,129],"novel":[57],"topology-based":[58],"(TPEA)":[62],"method,":[63],"which":[64,179],"integrated":[65,93],"topological":[66],"properties":[67],"global":[69],"upstream/downstream":[70],"positions":[71],"genes":[73],"pathways.":[75],"We":[76],"compared":[77],"TPEA":[78,151],"with":[79],"four":[80],"tools,":[86,146],"including":[87],"database":[88],"for":[89],"annotation,":[90],"visualization":[91],"discovery":[94],"(DAVID),":[95],"set":[97],"(GSEA),":[100],"centrality-based":[101],"(CePa)":[104],"signaling":[106],"impact":[108],"(SPIA),":[110],"through":[111],"analyzing":[112,162],"six":[113],"expression":[115],"profiles":[116],"three":[118],"tumor":[119],"types":[120],"(colorectal":[121],"cancer,":[122],"thyroid":[123],"endometrial":[126],"cancer).":[127],"As":[128],"result,":[130],"identified":[132],"several":[133],"well-known":[134],"pathways":[137],"that":[138,156],"could":[139,180],"not":[140],"be":[141],"obtained":[142],"by":[143],"results":[149],"were":[152],"more":[153],"stable":[154],"than":[155],"other":[159],"tools":[160],"different":[163],"data":[164],"sets":[165],"same":[168],"cancer.":[169],"Ultimately,":[170],"developed":[172],"an":[173],"R":[174,192],"package":[175],"implement":[177],"TPEA,":[178],"online":[181],"update":[182],"KEGG":[183],"is":[187],"available":[188],"at":[189],"Comprehensive":[191],"Archive":[193],"Network":[194],"(CRAN):":[195],"https://cran.r-project.org/web/packages/TPEA/.":[196]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":11},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":11},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":2}],"updated_date":"2026-03-06T13:50:29.536080","created_date":"2025-10-10T00:00:00"}