{"id":"https://openalex.org/W4226064549","doi":"https://doi.org/10.1093/bioinformatics/btac217","title":"The ENDS of assumptions: an online tool for the epistemic non-parametric drug\u2013response scoring","display_name":"The ENDS of assumptions: an online tool for the epistemic non-parametric drug\u2013response scoring","publication_year":2022,"publication_date":"2022-04-07","ids":{"openalex":"https://openalex.org/W4226064549","doi":"https://doi.org/10.1093/bioinformatics/btac217","pmid":"https://pubmed.ncbi.nlm.nih.gov/35389453"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btac217","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac217","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/11/3132/43857854/btac217.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/38/11/3132/43857854/btac217.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5018642770","display_name":"Ali Amiryousefi","orcid":"https://orcid.org/0000-0002-6317-3860"},"institutions":[{"id":"https://openalex.org/I133731052","display_name":"University of Helsinki","ror":"https://ror.org/040af2s02","country_code":"FI","type":"education","lineage":["https://openalex.org/I133731052"]}],"countries":["FI"],"is_corresponding":true,"raw_author_name":"Ali Amiryousefi","raw_affiliation_strings":["Research Program in Systems Oncology, Faculty of Medicine, University of Helsinki , Helsinki, Finland"],"raw_orcid":"https://orcid.org/0000-0002-6317-3860","affiliations":[{"raw_affiliation_string":"Research Program in Systems Oncology, Faculty of Medicine, University of Helsinki , Helsinki, Finland","institution_ids":["https://openalex.org/I133731052"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061762388","display_name":"Bernardo Williams","orcid":null},"institutions":[{"id":"https://openalex.org/I133731052","display_name":"University of Helsinki","ror":"https://ror.org/040af2s02","country_code":"FI","type":"education","lineage":["https://openalex.org/I133731052"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Bernardo Williams","raw_affiliation_strings":["Research Program in Systems Oncology, Faculty of Medicine, University of Helsinki , Helsinki, Finland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Program in Systems Oncology, Faculty of Medicine, University of Helsinki , Helsinki, Finland","institution_ids":["https://openalex.org/I133731052"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017969980","display_name":"Mohieddin Jafari","orcid":null},"institutions":[{"id":"https://openalex.org/I133731052","display_name":"University of Helsinki","ror":"https://ror.org/040af2s02","country_code":"FI","type":"education","lineage":["https://openalex.org/I133731052"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Mohieddin Jafari","raw_affiliation_strings":["Research Program in Systems Oncology, Faculty of Medicine, University of Helsinki , Helsinki, Finland"],"raw_orcid":"https://orcid.org/0000-0002-6991-8587","affiliations":[{"raw_affiliation_string":"Research Program in Systems Oncology, Faculty of Medicine, University of Helsinki , Helsinki, Finland","institution_ids":["https://openalex.org/I133731052"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083397767","display_name":"Jing Tang","orcid":"https://orcid.org/0000-0001-7480-7710"},"institutions":[{"id":"https://openalex.org/I133731052","display_name":"University of Helsinki","ror":"https://ror.org/040af2s02","country_code":"FI","type":"education","lineage":["https://openalex.org/I133731052"]}],"countries":["FI"],"is_corresponding":true,"raw_author_name":"Jing Tang","raw_affiliation_strings":["Research Program in Systems Oncology, Faculty of Medicine, University of Helsinki , Helsinki, Finland"],"raw_orcid":"https://orcid.org/0000-0001-7480-7710","affiliations":[{"raw_affiliation_string":"Research Program in Systems Oncology, Faculty of Medicine, University of Helsinki , Helsinki, Finland","institution_ids":["https://openalex.org/I133731052"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5018642770","https://openalex.org/A5083397767"],"corresponding_institution_ids":["https://openalex.org/I133731052"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3622,"currency":"EUR","value_usd":3906},"fwci":0.4904,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.64558485,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":96},"biblio":{"volume":"38","issue":"11","first_page":"3132","last_page":"3133"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11235","display_name":"Statistical Methods in Clinical Trials","score":0.43389999866485596,"subfield":{"id":"https://openalex.org/subfields/2613","display_name":"Statistics and Probability"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11235","display_name":"Statistical Methods in Clinical Trials","score":0.43389999866485596,"subfield":{"id":"https://openalex.org/subfields/2613","display_name":"Statistics and Probability"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.2976999878883362,"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/T11798","display_name":"Optimal Experimental Design Methods","score":0.02630000002682209,"subfield":{"id":"https://openalex.org/subfields/1803","display_name":"Management Science and Operations Research"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/parametric-statistics","display_name":"Parametric statistics","score":0.7367235422134399},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6250548362731934},{"id":"https://openalex.org/keywords/sensitivity","display_name":"Sensitivity (control systems)","score":0.5590246319770813},{"id":"https://openalex.org/keywords/bayesian-probability","display_name":"Bayesian probability","score":0.4941592514514923},{"id":"https://openalex.org/keywords/drug","display_name":"Drug","score":0.4847226142883301},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.4480675160884857},{"id":"https://openalex.org/keywords/parametric-model","display_name":"Parametric model","score":0.446225106716156},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.29412367939949036},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.28766149282455444},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2666499614715576},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.2078084647655487},{"id":"https://openalex.org/keywords/pharmacology","display_name":"Pharmacology","score":0.1674792468547821}],"concepts":[{"id":"https://openalex.org/C117251300","wikidata":"https://www.wikidata.org/wiki/Q1849855","display_name":"Parametric statistics","level":2,"score":0.7367235422134399},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6250548362731934},{"id":"https://openalex.org/C21200559","wikidata":"https://www.wikidata.org/wiki/Q7451068","display_name":"Sensitivity (control systems)","level":2,"score":0.5590246319770813},{"id":"https://openalex.org/C107673813","wikidata":"https://www.wikidata.org/wiki/Q812534","display_name":"Bayesian probability","level":2,"score":0.4941592514514923},{"id":"https://openalex.org/C2780035454","wikidata":"https://www.wikidata.org/wiki/Q8386","display_name":"Drug","level":2,"score":0.4847226142883301},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.4480675160884857},{"id":"https://openalex.org/C24574437","wikidata":"https://www.wikidata.org/wiki/Q7135228","display_name":"Parametric model","level":3,"score":0.446225106716156},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.29412367939949036},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.28766149282455444},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2666499614715576},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2078084647655487},{"id":"https://openalex.org/C98274493","wikidata":"https://www.wikidata.org/wiki/Q128406","display_name":"Pharmacology","level":1,"score":0.1674792468547821},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"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/C24326235","wikidata":"https://www.wikidata.org/wiki/Q126095","display_name":"Electronic engineering","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},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003625","descriptor_name":"Data Collection","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003625","descriptor_name":"Data Collection","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003625","descriptor_name":"Data Collection","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":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btac217","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac217","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/11/3132/43857854/btac217.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:35389453","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35389453","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:helda.helsinki.fi:10138/344622","is_oa":true,"landing_page_url":"http://hdl.handle.net/10138/344622","pdf_url":null,"source":{"id":"https://openalex.org/S4210213322","display_name":"Ty\u00f6v\u00e4entutkimus Vuosikirja","issn_l":"0784-1272","issn":["0784-1272","1459-7780"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:9154283","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9154283","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":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btac217","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac217","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/11/3132/43857854/btac217.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4939550489","display_name":null,"funder_award_id":"332454","funder_id":"https://openalex.org/F4320321108","funder_display_name":"Academy of Finland"},{"id":"https://openalex.org/G6716920071","display_name":"Multipartite network-based models for precision medicine","funder_award_id":"332454","funder_id":"https://openalex.org/F4320321108","funder_display_name":"Academy of Finland"}],"funders":[{"id":"https://openalex.org/F4320321108","display_name":"Academy of Finland","ror":"https://ror.org/05k73zm37"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4226064549.pdf","grobid_xml":"https://content.openalex.org/works/W4226064549.grobid-xml"},"referenced_works_count":6,"referenced_works":["https://openalex.org/W1823184461","https://openalex.org/W2029437336","https://openalex.org/W2036065701","https://openalex.org/W2212640525","https://openalex.org/W2798041799","https://openalex.org/W4230452299"],"related_works":["https://openalex.org/W1529374794","https://openalex.org/W2046837923","https://openalex.org/W2393503779","https://openalex.org/W2289718384","https://openalex.org/W1995675544","https://openalex.org/W2509524819","https://openalex.org/W2012121796","https://openalex.org/W3127866798","https://openalex.org/W2068427817","https://openalex.org/W4294845631"],"abstract_inverted_index":{"MOTIVATION:":[0],"The":[1,129,154],"drug":[2,9,51,61,145],"sensitivity":[3],"analysis":[4],"is":[5,134,156],"often":[6,28],"elucidated":[7],"from":[8,168],"dose-response":[10,146],"curves.":[11],"These":[12],"curves":[13],"capture":[14],"the":[15,45,60,73,77,100,117,124,127],"degree":[16],"of":[17,25,41,50,59,67,126,131],"cell":[18],"viability":[19],"(or":[20],"inhibition)":[21],"over":[22],"a":[23,39,55],"range":[24],"induced":[26],"drugs,":[27],"with":[29],"parametric":[30,69,101],"assumptions":[31,70],"that":[32],"are":[33,103,119,174],"rarely":[34],"validated.":[35],"RESULTS:":[36],"We":[37],"present":[38],"class":[40],"non-parametric":[42,91],"models":[43,65,92,133],"for":[44,144],"curve":[46,147],"fitting":[47,148],"and":[48,85,97,99,111,149,162],"scoring":[49],"dose-responses.":[52],"To":[53],"allow":[54,76],"more":[56],"objective":[57],"representation":[58],"sensitivity,":[62],"these":[63,132],"epistemic":[64],"devoid":[66],"any":[68],"attached":[71],"to":[72,116,122],"linear":[74],"fit,":[75],"parallel":[78],"indexing":[79],"such":[80],"as":[81,141],"half-maximal":[82],"inhibitory":[83],"concentration":[84],"area":[86],"under":[87],"curve.":[88],"Specifically,":[89],"three":[90],"including":[93,107],"spline":[94],"(npS),":[95],"monotonic":[96],"Bayesian":[98],"logistic":[102],"implemented.":[104],"Other":[105],"indices":[106],"maximum":[108],"effective":[109],"dose":[110],"drug-response":[112],"span":[113],"gradient":[114],"pertinent":[115],"npS":[118],"also":[120],"provided":[121],"facilitate":[123],"interpretation":[125],"fit.":[128],"collection":[130],"implemented":[135],"in":[136],"an":[137],"online":[138,159],"app,":[139],"standing":[140],"useful":[142],"resource":[143],"analysis.":[150],"AVAILABILITY":[151],"AND":[152],"IMPLEMENTATION:":[153],"ENDS":[155],"freely":[157],"available":[158,175],"at":[160,176],"https://irscope.shinyapps.io/ENDS/":[161],"source":[163],"codes":[164],"can":[165],"be":[166],"obtained":[167],"https://github.com/AmiryousefiLab/ENDS.":[169],"SUPPLEMENTARY":[170],"INFORMATION:":[171],"Supplementary":[172],"data":[173],"Bioinformatics":[177],"online.":[178]},"counts_by_year":[{"year":2025,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}