{"id":"https://openalex.org/W3127832135","doi":"https://doi.org/10.1093/bioinformatics/btab086","title":"Multi-layered network-based pathway activity inference using directed random walks: application to predicting clinical outcomes in urologic cancer","display_name":"Multi-layered network-based pathway activity inference using directed random walks: application to predicting clinical outcomes in urologic cancer","publication_year":2021,"publication_date":"2021-02-03","ids":{"openalex":"https://openalex.org/W3127832135","doi":"https://doi.org/10.1093/bioinformatics/btab086","mag":"3127832135","pmid":"https://pubmed.ncbi.nlm.nih.gov/33543748"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab086","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab086","pdf_url":null,"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":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8388033","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100434350","display_name":"So Yeon Kim","orcid":"https://orcid.org/0000-0001-5645-2012"},"institutions":[{"id":"https://openalex.org/I57664883","display_name":"Ajou University","ror":"https://ror.org/03tzb2h73","country_code":"KR","type":"education","lineage":["https://openalex.org/I57664883"]},{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["KR","US"],"is_corresponding":false,"raw_author_name":"So Yeon Kim","raw_affiliation_strings":["Department of Biostatistics, Epidemiology & Informatics, Perelman School of Medicine, University of Pennsylvania , Philadelphia, PA 19104, USA","Department of Software and Computer Engineering, Ajou University , Suwon 16499, South Korea"],"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, Epidemiology & Informatics, Perelman School of Medicine, University of Pennsylvania , Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Department of Software and Computer Engineering, Ajou University , Suwon 16499, South Korea","institution_ids":["https://openalex.org/I57664883"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059617653","display_name":"Eun Kyung Choe","orcid":"https://orcid.org/0000-0002-7222-1772"},"institutions":[{"id":"https://openalex.org/I2802835388","display_name":"Seoul National University Hospital","ror":"https://ror.org/01z4nnt86","country_code":"KR","type":"healthcare","lineage":["https://openalex.org/I139264467","https://openalex.org/I2802835388"]},{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["KR","US"],"is_corresponding":false,"raw_author_name":"Eun Kyung Choe","raw_affiliation_strings":["Department of Biostatistics, Epidemiology & Informatics, Perelman School of Medicine, University of Pennsylvania , Philadelphia, PA 19104, USA","Department of Surgery, Seoul National University Hospital Healthcare System Gangnam Center , Seoul 06236, South Korea"],"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, Epidemiology & Informatics, Perelman School of Medicine, University of Pennsylvania , Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Department of Surgery, Seoul National University Hospital Healthcare System Gangnam Center , Seoul 06236, South Korea","institution_ids":["https://openalex.org/I2802835388"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059958266","display_name":"Manu Shivakumar","orcid":"https://orcid.org/0000-0003-4733-7375"},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Manu Shivakumar","raw_affiliation_strings":["Department of Biostatistics, Epidemiology & Informatics, Perelman School of Medicine, University of Pennsylvania , Philadelphia, PA 19104, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, Epidemiology & Informatics, Perelman School of Medicine, University of Pennsylvania , Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078473635","display_name":"Dokyoon Kim","orcid":"https://orcid.org/0000-0002-4592-9564"},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Dokyoon Kim","raw_affiliation_strings":["Department of Biostatistics, Epidemiology & Informatics, Perelman School of Medicine, University of Pennsylvania , Philadelphia, PA 19104, USA","Institute for Biomedical Informatics, University of Pennsylvania , Philadelphia, PA 19104, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, Epidemiology & Informatics, Perelman School of Medicine, University of Pennsylvania , Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Institute for Biomedical Informatics, University of Pennsylvania , Philadelphia, PA 19104, USA","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5068333871","display_name":"Kyung-Ah Sohn","orcid":"https://orcid.org/0000-0001-8941-1188"},"institutions":[{"id":"https://openalex.org/I57664883","display_name":"Ajou University","ror":"https://ror.org/03tzb2h73","country_code":"KR","type":"education","lineage":["https://openalex.org/I57664883"]}],"countries":["KR"],"is_corresponding":true,"raw_author_name":"Kyung-Ah Sohn","raw_affiliation_strings":["Department of Artificial Intelligence, Ajou University , Suwon 16499, South Korea","Department of Software and Computer Engineering, Ajou University , Suwon 16499, South Korea"],"affiliations":[{"raw_affiliation_string":"Department of Artificial Intelligence, Ajou University , Suwon 16499, South Korea","institution_ids":["https://openalex.org/I57664883"]},{"raw_affiliation_string":"Department of Software and Computer Engineering, Ajou University , Suwon 16499, South Korea","institution_ids":["https://openalex.org/I57664883"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5068333871","https://openalex.org/A5078473635"],"corresponding_institution_ids":["https://openalex.org/I57664883","https://openalex.org/I79576946"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.6507,"has_fulltext":false,"cited_by_count":9,"citation_normalized_percentile":{"value":0.66007077,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"37","issue":"16","first_page":"2405","last_page":"2413"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9973999857902527,"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":0.9973999857902527,"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/T11297","display_name":"Ferroptosis and cancer prognosis","score":0.9941999912261963,"subfield":{"id":"https://openalex.org/subfields/2740","display_name":"Pulmonary and Respiratory Medicine"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9891999959945679,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/inference","display_name":"Inference","score":0.8285688757896423},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6640623807907104},{"id":"https://openalex.org/keywords/r-package","display_name":"R package","score":0.5711794495582581},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.48374056816101074},{"id":"https://openalex.org/keywords/generality","display_name":"Generality","score":0.4794141948223114},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.4707247316837311},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.4589385390281677},{"id":"https://openalex.org/keywords/directed-acyclic-graph","display_name":"Directed acyclic graph","score":0.4196375012397766},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.40727561712265015},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.37102556228637695},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3361958861351013},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2422460913658142},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.17872294783592224},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.10417100787162781},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.09092575311660767},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.08773574233055115}],"concepts":[{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.8285688757896423},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6640623807907104},{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.5711794495582581},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.48374056816101074},{"id":"https://openalex.org/C2780767217","wikidata":"https://www.wikidata.org/wiki/Q5532421","display_name":"Generality","level":2,"score":0.4794141948223114},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.4707247316837311},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.4589385390281677},{"id":"https://openalex.org/C74197172","wikidata":"https://www.wikidata.org/wiki/Q1195339","display_name":"Directed acyclic graph","level":2,"score":0.4196375012397766},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.40727561712265015},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.37102556228637695},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3361958861351013},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2422460913658142},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.17872294783592224},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.10417100787162781},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.09092575311660767},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.08773574233055115},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.0},{"id":"https://openalex.org/C542102704","wikidata":"https://www.wikidata.org/wiki/Q183257","display_name":"Psychotherapist","level":1,"score":0.0},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btab086","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab086","pdf_url":null,"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:33543748","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33543748","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:pubmedcentral.nih.gov:8388033","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8388033","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:8388033","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8388033","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G107491585","display_name":null,"funder_award_id":"R01 LM012535","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"}],"funders":[{"id":"https://openalex.org/F4320322120","display_name":"National Research Foundation of Korea","ror":"https://ror.org/013aysd81"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":52,"referenced_works":["https://openalex.org/W1193442846","https://openalex.org/W1841364769","https://openalex.org/W1930774693","https://openalex.org/W1966716734","https://openalex.org/W1986705681","https://openalex.org/W1992045522","https://openalex.org/W2030653458","https://openalex.org/W2031954078","https://openalex.org/W2087936397","https://openalex.org/W2100625056","https://openalex.org/W2115580179","https://openalex.org/W2121887542","https://openalex.org/W2122552734","https://openalex.org/W2123403527","https://openalex.org/W2129925362","https://openalex.org/W2140416663","https://openalex.org/W2143426320","https://openalex.org/W2157076315","https://openalex.org/W2158384363","https://openalex.org/W2159482845","https://openalex.org/W2159707944","https://openalex.org/W2168517816","https://openalex.org/W2469942742","https://openalex.org/W2510199299","https://openalex.org/W2516915445","https://openalex.org/W2563997677","https://openalex.org/W2571001581","https://openalex.org/W2576091067","https://openalex.org/W2617359196","https://openalex.org/W2617509245","https://openalex.org/W2620006037","https://openalex.org/W2624701078","https://openalex.org/W2742540967","https://openalex.org/W2765654979","https://openalex.org/W2771692185","https://openalex.org/W2775697911","https://openalex.org/W2790295707","https://openalex.org/W2795548516","https://openalex.org/W2890964550","https://openalex.org/W2912792455","https://openalex.org/W2942746533","https://openalex.org/W2949231527","https://openalex.org/W2953073515","https://openalex.org/W2958486185","https://openalex.org/W3007701192","https://openalex.org/W3009483482","https://openalex.org/W3042601105","https://openalex.org/W3104123570","https://openalex.org/W4213279169","https://openalex.org/W4294216483","https://openalex.org/W6774977082","https://openalex.org/W6785526824"],"related_works":["https://openalex.org/W2587303152","https://openalex.org/W2130939068","https://openalex.org/W3163717165","https://openalex.org/W2114466827","https://openalex.org/W249159571","https://openalex.org/W2791736663","https://openalex.org/W2806770614","https://openalex.org/W2129949791","https://openalex.org/W2131550814","https://openalex.org/W1710460698"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
