{"id":"https://openalex.org/W3113931493","doi":"https://doi.org/10.1186/s13040-021-00263-w","title":"Personalized single-cell networks: a framework to predict the response of any gene to any drug for any patient","display_name":"Personalized single-cell networks: a framework to predict the response of any gene to any drug for any patient","publication_year":2021,"publication_date":"2021-08-05","ids":{"openalex":"https://openalex.org/W3113931493","doi":"https://doi.org/10.1186/s13040-021-00263-w","mag":"3113931493","pmid":"https://pubmed.ncbi.nlm.nih.gov/34353329"},"language":"en","primary_location":{"id":"doi:10.1186/s13040-021-00263-w","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-021-00263-w","pdf_url":"https://biodatamining.biomedcentral.com/track/pdf/10.1186/s13040-021-00263-w","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","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":"BioData Mining","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://biodatamining.biomedcentral.com/track/pdf/10.1186/s13040-021-00263-w","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5023077368","display_name":"Haripriya Harikumar","orcid":"https://orcid.org/0000-0001-9918-381X"},"institutions":[{"id":"https://openalex.org/I149704539","display_name":"Deakin University","ror":"https://ror.org/02czsnj07","country_code":"AU","type":"education","lineage":["https://openalex.org/I149704539"]}],"countries":["AU"],"is_corresponding":true,"raw_author_name":"Haripriya Harikumar","raw_affiliation_strings":["Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia. h.harikumar@deakin.edu.au","Institute for Health Transformation, Deakin University, Geelong, Australia. h.harikumar@deakin.edu.au","Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia"],"affiliations":[{"raw_affiliation_string":"Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia. h.harikumar@deakin.edu.au","institution_ids":["https://openalex.org/I149704539"]},{"raw_affiliation_string":"Institute for Health Transformation, Deakin University, Geelong, Australia. h.harikumar@deakin.edu.au","institution_ids":["https://openalex.org/I149704539"]},{"raw_affiliation_string":"Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia","institution_ids":["https://openalex.org/I149704539"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100780236","display_name":"Thomas P. Quinn","orcid":"https://orcid.org/0000-0003-0286-6329"},"institutions":[{"id":"https://openalex.org/I149704539","display_name":"Deakin University","ror":"https://ror.org/02czsnj07","country_code":"AU","type":"education","lineage":["https://openalex.org/I149704539"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Thomas P. Quinn","raw_affiliation_strings":["Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia. contacttomquinn@gmail.com","Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia"],"affiliations":[{"raw_affiliation_string":"Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia. contacttomquinn@gmail.com","institution_ids":["https://openalex.org/I149704539"]},{"raw_affiliation_string":"Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia","institution_ids":["https://openalex.org/I149704539"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024215125","display_name":"Santu Rana","orcid":"https://orcid.org/0000-0003-2247-850X"},"institutions":[{"id":"https://openalex.org/I149704539","display_name":"Deakin University","ror":"https://ror.org/02czsnj07","country_code":"AU","type":"education","lineage":["https://openalex.org/I149704539"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Santu Rana","raw_affiliation_strings":["Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia"],"affiliations":[{"raw_affiliation_string":"Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia","institution_ids":["https://openalex.org/I149704539"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011012522","display_name":"Sunil Gupta","orcid":"https://orcid.org/0000-0002-4669-9940"},"institutions":[{"id":"https://openalex.org/I149704539","display_name":"Deakin University","ror":"https://ror.org/02czsnj07","country_code":"AU","type":"education","lineage":["https://openalex.org/I149704539"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Sunil Gupta","raw_affiliation_strings":["Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia"],"affiliations":[{"raw_affiliation_string":"Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia","institution_ids":["https://openalex.org/I149704539"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5045540854","display_name":"Svetha Venkatesh","orcid":"https://orcid.org/0000-0001-8675-6631"},"institutions":[{"id":"https://openalex.org/I149704539","display_name":"Deakin University","ror":"https://ror.org/02czsnj07","country_code":"AU","type":"education","lineage":["https://openalex.org/I149704539"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Svetha Venkatesh","raw_affiliation_strings":["Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia"],"affiliations":[{"raw_affiliation_string":"Applied Artificial Intelligence Institute, Deakin University, Geelong, Australia","institution_ids":["https://openalex.org/I149704539"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5023077368"],"corresponding_institution_ids":["https://openalex.org/I149704539"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.2434,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.51153656,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"14","issue":"1","first_page":"37","last_page":"37"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9994000196456909,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9994000196456909,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9991999864578247,"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":0.9970999956130981,"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/computer-science","display_name":"Computer science","score":0.5620678067207336},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5503414273262024},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.5388808250427246},{"id":"https://openalex.org/keywords/data-integration","display_name":"Data integration","score":0.5168843269348145},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.4748154878616333},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.4502260088920593},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.4473711848258972},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.40328407287597656},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4021896421909332},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.37275469303131104},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.27481526136398315},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.19812825322151184},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1468839943408966}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5620678067207336},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5503414273262024},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.5388808250427246},{"id":"https://openalex.org/C72634772","wikidata":"https://www.wikidata.org/wiki/Q386824","display_name":"Data integration","level":2,"score":0.5168843269348145},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.4748154878616333},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.4502260088920593},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.4473711848258972},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.40328407287597656},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4021896421909332},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.37275469303131104},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.27481526136398315},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.19812825322151184},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1468839943408966},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.0},{"id":"https://openalex.org/C99454951","wikidata":"https://www.wikidata.org/wiki/Q932068","display_name":"Environmental health","level":1,"score":0.0},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","level":1,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1186/s13040-021-00263-w","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-021-00263-w","pdf_url":"https://biodatamining.biomedcentral.com/track/pdf/10.1186/s13040-021-00263-w","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","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":"BioData Mining","raw_type":"journal-article"},{"id":"pmid:34353329","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34353329","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":"BioData mining","raw_type":null},{"id":"pmh:oai:pure.atira.dk:openaire/a840fbbe-5c69-4b9d-8b0a-d7024565084b","is_oa":true,"landing_page_url":"https://research.manchester.ac.uk/en/publications/a840fbbe-5c69-4b9d-8b0a-d7024565084b","pdf_url":null,"source":{"id":"https://openalex.org/S4306400662","display_name":"Research Explorer (The University of Manchester)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I28407311","host_organization_name":"University of Manchester","host_organization_lineage":["https://openalex.org/I28407311"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Harikumar, H, Quinn, T P, Rana, S, Gupta, S & Venkatesh, S 2021, 'Personalized single-cell networks: a framework to predict the response of any gene to any drug for any patient', BioData Mining, vol. 14, 37. https://doi.org/10.1186/s13040-021-00263-w","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:doaj.org/article:862b0a4f44314d8e9aded21e456593da","is_oa":true,"landing_page_url":"https://doaj.org/article/862b0a4f44314d8e9aded21e456593da","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BioData Mining, Vol 14, Iss 1, Pp 1-15 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8340371","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8340371","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BioData Min","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s13040-021-00263-w","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-021-00263-w","pdf_url":"https://biodatamining.biomedcentral.com/track/pdf/10.1186/s13040-021-00263-w","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","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":"BioData Mining","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3113931493.pdf","grobid_xml":"https://content.openalex.org/works/W3113931493.grobid-xml"},"referenced_works_count":57,"referenced_works":["https://openalex.org/W149168848","https://openalex.org/W788502760","https://openalex.org/W1483152148","https://openalex.org/W1523266228","https://openalex.org/W1625061074","https://openalex.org/W1964305071","https://openalex.org/W1966327575","https://openalex.org/W1977431865","https://openalex.org/W1977839101","https://openalex.org/W1977908146","https://openalex.org/W2002185065","https://openalex.org/W2020541351","https://openalex.org/W2020755434","https://openalex.org/W2030017878","https://openalex.org/W2066432005","https://openalex.org/W2073637065","https://openalex.org/W2087684630","https://openalex.org/W2098509290","https://openalex.org/W2103017472","https://openalex.org/W2109363337","https://openalex.org/W2112408821","https://openalex.org/W2118526609","https://openalex.org/W2125637308","https://openalex.org/W2128985829","https://openalex.org/W2130410032","https://openalex.org/W2133299088","https://openalex.org/W2156975150","https://openalex.org/W2170512680","https://openalex.org/W2196920274","https://openalex.org/W2269040222","https://openalex.org/W2292790696","https://openalex.org/W2343557095","https://openalex.org/W2562383391","https://openalex.org/W2598848404","https://openalex.org/W2747998719","https://openalex.org/W2755883283","https://openalex.org/W2767336741","https://openalex.org/W2768921712","https://openalex.org/W2775679313","https://openalex.org/W2775698833","https://openalex.org/W2776980408","https://openalex.org/W2782565892","https://openalex.org/W2785509713","https://openalex.org/W2792440843","https://openalex.org/W2890676693","https://openalex.org/W2900850487","https://openalex.org/W2914478799","https://openalex.org/W2929810236","https://openalex.org/W2949960840","https://openalex.org/W2951531839","https://openalex.org/W2955030394","https://openalex.org/W2964234453","https://openalex.org/W3026295545","https://openalex.org/W3133677217","https://openalex.org/W3157631795","https://openalex.org/W4242451260","https://openalex.org/W4249723702"],"related_works":["https://openalex.org/W2130939068","https://openalex.org/W3163717165","https://openalex.org/W2114466827","https://openalex.org/W2791736663","https://openalex.org/W2129949791","https://openalex.org/W2806770614","https://openalex.org/W1710460698","https://openalex.org/W249159571","https://openalex.org/W2131550814","https://openalex.org/W2029535096"],"abstract_inverted_index":{"Our":[0],"manuscript":[1],"introduces":[2],"two":[3],"innovations":[4,37],"to":[5,18,32,66],"the":[6],"integration":[7],"of":[8],"heterogeneous":[9,63],"biological":[10],"data.":[11],"First,":[12],"we":[13,25],"use":[14,26],"a":[15],"\"dual-channel\"":[16],"method":[17],"predict":[19,40],"up-regulation":[20],"and":[21,43],"down-regulation":[22],"separately.":[23],"Second,":[24],"individualized":[27],"single-cell":[28,56],"gene":[29,41],"co-expression":[30,57],"networks":[31,65],"make":[33],"personalized":[34],"predictions.":[35],"These":[36],"let":[38],"us":[39],"function":[42],"drug":[44],"response":[45],"for":[46],"individual":[47],"patients.":[48],"Taken":[49],"together,":[50],"our":[51],"work":[52],"shows":[53],"promise":[54],"that":[55],"data":[58],"could":[59],"be":[60],"combined":[61],"in":[62],"information":[64],"facilitate":[67],"precision":[68],"medicine.":[69]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}