{"id":"https://openalex.org/W2100922775","doi":"https://doi.org/10.1093/bioinformatics/btv157","title":"Test set bias affects reproducibility of gene signatures","display_name":"Test set bias affects reproducibility of gene signatures","publication_year":2015,"publication_date":"2015-03-18","ids":{"openalex":"https://openalex.org/W2100922775","doi":"https://doi.org/10.1093/bioinformatics/btv157","mag":"2100922775","pmid":"https://pubmed.ncbi.nlm.nih.gov/25788628"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btv157","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv157","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/14/2318/49034474/bioinformatics_31_14_2318.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/31/14/2318/49034474/bioinformatics_31_14_2318.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5001511264","display_name":"Prasad Patil","orcid":"https://orcid.org/0009-0007-6092-2268"},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Prasad Patil","raw_affiliation_strings":["1 Department of Biostatistics, Johns Hopkins School of Public Health, Baltimore, MD, USA,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Biostatistics, Johns Hopkins School of Public Health, Baltimore, MD, USA,","institution_ids":["https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065554649","display_name":"Pierre-Olivier Bachant-Winner","orcid":null},"institutions":[{"id":"https://openalex.org/I4210158752","display_name":"Montreal Clinical Research Institute","ror":"https://ror.org/05m8pzq90","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210158752","https://openalex.org/I70931966"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Pierre-Olivier Bachant-Winner","raw_affiliation_strings":["2 Institut de Recherches Cliniques de Montr\u00e9al, Montreal, Quebec H2W 1R7, Canada,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"2 Institut de Recherches Cliniques de Montr\u00e9al, Montreal, Quebec H2W 1R7, Canada,","institution_ids":["https://openalex.org/I4210158752"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010487226","display_name":"Benjamin Haibe\u2010Kains","orcid":"https://orcid.org/0000-0002-7684-0079"},"institutions":[{"id":"https://openalex.org/I1325899441","display_name":"University Health Network","ror":"https://ror.org/042xt5161","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1325899441"]},{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]},{"id":"https://openalex.org/I2802654988","display_name":"Princess Margaret Cancer Centre","ror":"https://ror.org/03zayce58","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1325899441","https://openalex.org/I2802654988"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Benjamin Haibe-Kains","raw_affiliation_strings":["3 Princess Margaret Cancer Centre, University Health Network, Toronto, Ontario M5G 1L7, Canada and","4 Department of Medical Biophysics, University of Toronto, Toronto, Ontario M5G 1L7, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"3 Princess Margaret Cancer Centre, University Health Network, Toronto, Ontario M5G 1L7, Canada and","institution_ids":["https://openalex.org/I2802654988","https://openalex.org/I1325899441"]},{"raw_affiliation_string":"4 Department of Medical Biophysics, University of Toronto, Toronto, Ontario M5G 1L7, Canada","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5020868614","display_name":"Jeffrey T. Leek","orcid":"https://orcid.org/0000-0002-2873-2671"},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jeffrey T. Leek","raw_affiliation_strings":["1 Department of Biostatistics, Johns Hopkins School of Public Health, Baltimore, MD, USA,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Biostatistics, Johns Hopkins School of Public Health, Baltimore, MD, USA,","institution_ids":["https://openalex.org/I145311948"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5010487226","https://openalex.org/A5020868614"],"corresponding_institution_ids":["https://openalex.org/I1325899441","https://openalex.org/I145311948","https://openalex.org/I185261750","https://openalex.org/I2802654988"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":6.175,"has_fulltext":false,"cited_by_count":123,"citation_normalized_percentile":{"value":0.97137212,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"31","issue":"14","first_page":"2318","last_page":"2323"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.633400022983551,"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/T10885","display_name":"Gene expression and cancer classification","score":0.633400022983551,"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":0.11879999935626984,"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/T10769","display_name":"BRCA gene mutations in cancer","score":0.04439999908208847,"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/normalization","display_name":"Normalization (sociology)","score":0.8309938907623291},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6570022106170654},{"id":"https://openalex.org/keywords/data-set","display_name":"Data set","score":0.5319877862930298},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5084744691848755},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.492603600025177},{"id":"https://openalex.org/keywords/test-set","display_name":"Test set","score":0.48135286569595337},{"id":"https://openalex.org/keywords/reproducibility","display_name":"Reproducibility","score":0.4563820958137512},{"id":"https://openalex.org/keywords/sample-size-determination","display_name":"Sample size determination","score":0.4410014748573303},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.42625653743743896},{"id":"https://openalex.org/keywords/test-data","display_name":"Test data","score":0.4257059693336487},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.3428645730018616},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.32819104194641113},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.32348549365997314},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.15852782130241394},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.13845551013946533}],"concepts":[{"id":"https://openalex.org/C136886441","wikidata":"https://www.wikidata.org/wiki/Q926129","display_name":"Normalization (sociology)","level":2,"score":0.8309938907623291},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6570022106170654},{"id":"https://openalex.org/C58489278","wikidata":"https://www.wikidata.org/wiki/Q1172284","display_name":"Data set","level":2,"score":0.5319877862930298},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5084744691848755},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.492603600025177},{"id":"https://openalex.org/C169903167","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Test set","level":2,"score":0.48135286569595337},{"id":"https://openalex.org/C9893847","wikidata":"https://www.wikidata.org/wiki/Q1425625","display_name":"Reproducibility","level":2,"score":0.4563820958137512},{"id":"https://openalex.org/C129848803","wikidata":"https://www.wikidata.org/wiki/Q2564360","display_name":"Sample size determination","level":2,"score":0.4410014748573303},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.42625653743743896},{"id":"https://openalex.org/C16910744","wikidata":"https://www.wikidata.org/wiki/Q7705759","display_name":"Test data","level":2,"score":0.4257059693336487},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.3428645730018616},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.32819104194641113},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.32348549365997314},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.15852782130241394},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.13845551013946533},{"id":"https://openalex.org/C19165224","wikidata":"https://www.wikidata.org/wiki/Q23404","display_name":"Anthropology","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"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/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000401","qualifier_name":"mortality","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000401","qualifier_name":"mortality","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000401","qualifier_name":"mortality","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","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":"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":"D008875","descriptor_name":"Middle Aged","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008875","descriptor_name":"Middle Aged","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008875","descriptor_name":"Middle Aged","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009367","descriptor_name":"Neoplasm Staging","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009367","descriptor_name":"Neoplasm Staging","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009367","descriptor_name":"Neoplasm Staging","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011379","descriptor_name":"Prognosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011379","descriptor_name":"Prognosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011379","descriptor_name":"Prognosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011960","descriptor_name":"Receptors, Estrogen","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011960","descriptor_name":"Receptors, Estrogen","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011960","descriptor_name":"Receptors, Estrogen","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015996","descriptor_name":"Survival Rate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015996","descriptor_name":"Survival Rate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015996","descriptor_name":"Survival Rate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018719","descriptor_name":"Erb-b2 Receptor Tyrosine Kinases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018719","descriptor_name":"Receptor, ErbB-2","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018719","descriptor_name":"Receptor, ErbB-2","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D060787","descriptor_name":"Neoplasm Grading","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060787","descriptor_name":"Neoplasm Grading","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060787","descriptor_name":"Neoplasm Grading","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btv157","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv157","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/14/2318/49034474/bioinformatics_31_14_2318.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:25788628","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25788628","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:3910411","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4495301","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":null,"raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:31/14/2318","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/31/14/2318","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"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"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btv157","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv157","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/14/2318/49034474/bioinformatics_31_14_2318.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":[{"display_name":"Good health and well-being","score":0.5199999809265137,"id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320335036","display_name":"BC Cancer Agency","ror":"https://ror.org/03sfybe47"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":22,"referenced_works":["https://openalex.org/W1979901771","https://openalex.org/W1999687329","https://openalex.org/W2021129827","https://openalex.org/W2063641249","https://openalex.org/W2091947792","https://openalex.org/W2102461795","https://openalex.org/W2113878188","https://openalex.org/W2118258530","https://openalex.org/W2128432283","https://openalex.org/W2128985829","https://openalex.org/W2132619562","https://openalex.org/W2132750127","https://openalex.org/W2134389439","https://openalex.org/W2138550913","https://openalex.org/W2143129697","https://openalex.org/W2154976095","https://openalex.org/W2161036742","https://openalex.org/W2169353806","https://openalex.org/W3203702550","https://openalex.org/W6663889322","https://openalex.org/W6677626707","https://openalex.org/W6683651722"],"related_works":["https://openalex.org/W2028462208","https://openalex.org/W4285337533","https://openalex.org/W2982831492","https://openalex.org/W3138055416","https://openalex.org/W3094735304","https://openalex.org/W2187490799","https://openalex.org/W1574942924","https://openalex.org/W2363004085","https://openalex.org/W2900267584","https://openalex.org/W3019226033"],"abstract_inverted_index":{"MOTIVATION:":[0],"Prior":[1],"to":[2,6,16,25,167],"applying":[3],"genomic":[4,10],"predictors":[5],"clinical":[7,82],"samples,":[8],"the":[9,19,26,30,103,126,136],"data":[11,22,27,41,98,137,163],"must":[12],"be":[13,100],"properly":[14],"normalized":[15,67],"ensure":[17],"that":[18,51,87,131],"test":[20,70,97,147],"set":[21,71,112,148],"are":[23,66],"comparable":[24],"upon":[28],"which":[29,61,93],"predictor":[31],"was":[32],"trained.":[33],"The":[34,161],"most":[35],"effective":[36],"normalization":[37,78],"methods":[38],"depend":[39],"on":[40,60,95,133],"from":[42,89,135],"multiple":[43],"patients.":[44],"From":[45],"a":[46,54,111],"biomedical":[47],"perspective,":[48],"this":[49],"implies":[50],"predictions":[52],"for":[53],"single":[55],"patient":[56,63,104],"may":[57,99],"change":[58],"depending":[59],"other":[62],"samples":[64],"they":[65],"with.":[68],"This":[69],"bias":[72,149],"will":[73],"occur":[74],"when":[75,102],"any":[76],"cross-sample":[77],"is":[79,172],"used":[80],"before":[81],"prediction.":[83],"RESULTS:":[84],"We":[85],"demonstrate":[86],"results":[88],"existing":[90],"gene":[91,129],"signatures":[92,130,141],"rely":[94,132],"normalizing":[96],"irreproducible":[101],"population":[105],"changes":[106],"composition":[107],"or":[108],"size":[109],"using":[110,142],"of":[113,128],"curated,":[114],"publicly":[115],"available":[116,173],"breast":[117],"cancer":[118],"microarray":[119],"experiments.":[120],"As":[121],"an":[122],"alternative,":[123],"we":[124],"examine":[125],"use":[127],"ranks":[134],"and":[138,164],"show":[139],"why":[140],"rank-based":[143],"features":[144],"can":[145],"avoid":[146],"while":[150],"maintaining":[151],"highly":[152],"accurate":[153],"classification,":[154],"even":[155],"across":[156],"platforms.":[157],"AVAILABILITY":[158],"AND":[159],"IMPLEMENTATION:":[160],"code,":[162],"instructions":[165],"necessary":[166],"reproduce":[168],"our":[169],"entire":[170],"analysis":[171],"at":[174],"https://github.com/prpatil/testsetbias.":[175]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":14},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":25},{"year":2019,"cited_by_count":9},{"year":2018,"cited_by_count":17},{"year":2017,"cited_by_count":14},{"year":2016,"cited_by_count":8},{"year":2015,"cited_by_count":2}],"updated_date":"2026-06-21T07:57:09.225873","created_date":"2025-10-10T00:00:00"}
