{"id":"https://openalex.org/W2148482472","doi":"https://doi.org/10.1186/1471-2105-8-142","title":"Pre-processing Agilent microarray data","display_name":"Pre-processing Agilent microarray data","publication_year":2007,"publication_date":"2007-05-01","ids":{"openalex":"https://openalex.org/W2148482472","doi":"https://doi.org/10.1186/1471-2105-8-142","mag":"2148482472","pmid":"https://pubmed.ncbi.nlm.nih.gov/17472750"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-8-142","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-8-142","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-8-142","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"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":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-8-142","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5060234674","display_name":"Marianna Zahurak","orcid":"https://orcid.org/0000-0002-5086-6721"},"institutions":[{"id":"https://openalex.org/I2799853436","display_name":"Johns Hopkins Medicine","ror":"https://ror.org/037zgn354","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799853436"]},{"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":"Marianna Zahurak","raw_affiliation_strings":["Johns Hopkins University School of Medicine, Oncology Biostatistics, Baltimore, MD 21205, USA. zahurma@jhmi.edu","Oncology Biostatistics, Johns Hopkins University School of Medicine, 550 N. Broadway, Baltimore, MD, 21205, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Johns Hopkins University School of Medicine, Oncology Biostatistics, Baltimore, MD 21205, USA. zahurma@jhmi.edu","institution_ids":["https://openalex.org/I2799853436","https://openalex.org/I145311948"]},{"raw_affiliation_string":"Oncology Biostatistics, Johns Hopkins University School of Medicine, 550 N. Broadway, Baltimore, MD, 21205, USA","institution_ids":["https://openalex.org/I2799853436","https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050977500","display_name":"Giovanni Parmigiani","orcid":"https://orcid.org/0000-0002-8783-5961"},"institutions":[{"id":"https://openalex.org/I2799853436","display_name":"Johns Hopkins Medicine","ror":"https://ror.org/037zgn354","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799853436"]},{"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":"Giovanni Parmigiani","raw_affiliation_strings":["Oncology Biostatistics, Johns Hopkins University School of Medicine, 550 N. Broadway, Baltimore, MD, 21205, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Oncology Biostatistics, Johns Hopkins University School of Medicine, 550 N. Broadway, Baltimore, MD, 21205, USA","institution_ids":["https://openalex.org/I2799853436","https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005630266","display_name":"Wayne Yu","orcid":"https://orcid.org/0000-0003-2218-1490"},"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":"Wayne Yu","raw_affiliation_strings":["Johns Hopkins School of Medicine, Baltimore, MD, 21231, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Johns Hopkins School of Medicine, Baltimore, MD, 21231, USA","institution_ids":["https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065959584","display_name":"Robert B. Scharpf","orcid":"https://orcid.org/0000-0003-4702-2656"},"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":"Robert B Scharpf","raw_affiliation_strings":["Johns Hopkins Bloomberg School of Public Health, 615 N. Wolfe St., Room E3034, Baltimore, MD, 21205, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Johns Hopkins Bloomberg School of Public Health, 615 N. Wolfe St., Room E3034, Baltimore, MD, 21205, USA","institution_ids":["https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058902093","display_name":"David M. Berman","orcid":"https://orcid.org/0000-0001-5985-3698"},"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"]},{"id":"https://openalex.org/I2799853436","display_name":"Johns Hopkins Medicine","ror":"https://ror.org/037zgn354","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799853436"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David Berman","raw_affiliation_strings":["Johns Hopkins University School of Medicine, 1550 Orleans St., CRB II Room 5.45, Baltimore, MD, 21231, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Johns Hopkins University School of Medicine, 1550 Orleans St., CRB II Room 5.45, Baltimore, MD, 21231, USA","institution_ids":["https://openalex.org/I2799853436","https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013881851","display_name":"Edward M. Schaeffer","orcid":"https://orcid.org/0000-0003-0699-1899"},"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":"Edward Schaeffer","raw_affiliation_strings":["Johns Hopkins University School of Medicine, 600 N. Wolfe St., Marburg 145, Baltimore, MD, 21287, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Johns Hopkins University School of Medicine, 600 N. Wolfe St., Marburg 145, Baltimore, MD, 21287, USA","institution_ids":["https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050431989","display_name":"Shabana Shabbeer","orcid":null},"institutions":[{"id":"https://openalex.org/I2799853436","display_name":"Johns Hopkins Medicine","ror":"https://ror.org/037zgn354","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799853436"]},{"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":"Shabana Shabbeer","raw_affiliation_strings":["Johns Hopkins University School of Medicine, 1650 Orleans St., CRB I, Baltimore, MD, 21231, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Johns Hopkins University School of Medicine, 1650 Orleans St., CRB I, Baltimore, MD, 21231, USA","institution_ids":["https://openalex.org/I2799853436","https://openalex.org/I145311948"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5022931646","display_name":"Leslie Cope","orcid":"https://orcid.org/0000-0002-4098-3289"},"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"]},{"id":"https://openalex.org/I2799853436","display_name":"Johns Hopkins Medicine","ror":"https://ror.org/037zgn354","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799853436"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Leslie Cope","raw_affiliation_strings":["Oncology Biostatistics, Johns Hopkins University School of Medicine, 550 N. Broadway, Baltimore, MD, 21205, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Oncology Biostatistics, Johns Hopkins University School of Medicine, 550 N. Broadway, Baltimore, MD, 21205, USA","institution_ids":["https://openalex.org/I2799853436","https://openalex.org/I145311948"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5060234674"],"corresponding_institution_ids":["https://openalex.org/I145311948","https://openalex.org/I2799853436"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":5.6526,"has_fulltext":true,"cited_by_count":208,"citation_normalized_percentile":{"value":0.96937978,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":100},"biblio":{"volume":"8","issue":"1","first_page":"142","last_page":"142"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9916999936103821,"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":0.9916999936103821,"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/T11970","display_name":"Molecular Biology Techniques and Applications","score":0.002099999925121665,"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/T12867","display_name":"Advanced Biosensing Techniques and Applications","score":0.001500000013038516,"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/normalization","display_name":"Normalization (sociology)","score":0.8414585590362549},{"id":"https://openalex.org/keywords/subtraction","display_name":"Subtraction","score":0.6426644325256348},{"id":"https://openalex.org/keywords/statistic","display_name":"Statistic","score":0.4667504131793976},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4657730758190155},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.43911588191986084},{"id":"https://openalex.org/keywords/background-subtraction","display_name":"Background subtraction","score":0.43277448415756226},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3981212079524994},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.3946039080619812},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.348275750875473},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.33798131346702576},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3047676384449005},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.16311344504356384},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.1610923707485199},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.15090176463127136},{"id":"https://openalex.org/keywords/arithmetic","display_name":"Arithmetic","score":0.08858546614646912}],"concepts":[{"id":"https://openalex.org/C136886441","wikidata":"https://www.wikidata.org/wiki/Q926129","display_name":"Normalization (sociology)","level":2,"score":0.8414585590362549},{"id":"https://openalex.org/C68060419","wikidata":"https://www.wikidata.org/wiki/Q40754","display_name":"Subtraction","level":2,"score":0.6426644325256348},{"id":"https://openalex.org/C89128539","wikidata":"https://www.wikidata.org/wiki/Q1949963","display_name":"Statistic","level":2,"score":0.4667504131793976},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4657730758190155},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.43911588191986084},{"id":"https://openalex.org/C32653426","wikidata":"https://www.wikidata.org/wiki/Q3813641","display_name":"Background subtraction","level":3,"score":0.43277448415756226},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3981212079524994},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.3946039080619812},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.348275750875473},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.33798131346702576},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3047676384449005},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.16311344504356384},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.1610923707485199},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.15090176463127136},{"id":"https://openalex.org/C94375191","wikidata":"https://www.wikidata.org/wiki/Q11205","display_name":"Arithmetic","level":1,"score":0.08858546614646912},{"id":"https://openalex.org/C19165224","wikidata":"https://www.wikidata.org/wiki/Q23404","display_name":"Anthropology","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},{"id":"https://openalex.org/C160633673","wikidata":"https://www.wikidata.org/wiki/Q355198","display_name":"Pixel","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004285","descriptor_name":"Dogs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004285","descriptor_name":"Dogs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004285","descriptor_name":"Dogs","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":"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":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","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":"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":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":"Q000145","qualifier_name":"classification","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":"D045744","descriptor_name":"Cell Line, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D045744","descriptor_name":"Cell Line, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D045744","descriptor_name":"Cell Line, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-8-142","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-8-142","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-8-142","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"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":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:17472750","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/17472750","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:df6ed3387b864c929858874e55f09c3b","is_oa":true,"landing_page_url":"https://doaj.org/article/df6ed3387b864c929858874e55f09c3b","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 8, Iss 1, p 142 (2007)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:1876252","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/1876252","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":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-8-142","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-8-142","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-8-142","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"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":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1042888099","display_name":null,"funder_award_id":"P30 CA06973","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G1914829792","display_name":null,"funder_award_id":"HL72488","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G3234610482","display_name":null,"funder_award_id":"P30 CA06973","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G360335261","display_name":null,"funder_award_id":"CA06973","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G7495519224","display_name":null,"funder_award_id":"R01 HL072488","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G7579139100","display_name":null,"funder_award_id":"CA06973","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7826962080","display_name":null,"funder_award_id":"P30 CA06973-44","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G8582673968","display_name":null,"funder_award_id":"P30 CA006973","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320310145","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337338","display_name":"National Heart, Lung, and Blood Institute","ror":"https://ror.org/012pb6c26"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2148482472.pdf","grobid_xml":"https://content.openalex.org/works/W2148482472.grobid-xml"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W22598072","https://openalex.org/W219883212","https://openalex.org/W1495359568","https://openalex.org/W1533335653","https://openalex.org/W1546952499","https://openalex.org/W1792175597","https://openalex.org/W1943548283","https://openalex.org/W2013444425","https://openalex.org/W2014245116","https://openalex.org/W2021670746","https://openalex.org/W2048316533","https://openalex.org/W2091585128","https://openalex.org/W2096037842","https://openalex.org/W2099114361","https://openalex.org/W2100668965","https://openalex.org/W2105793531","https://openalex.org/W2107064121","https://openalex.org/W2109453886","https://openalex.org/W2109972881","https://openalex.org/W2116616059","https://openalex.org/W2119274294","https://openalex.org/W2128375108","https://openalex.org/W2133111499","https://openalex.org/W2140774750","https://openalex.org/W2145576538","https://openalex.org/W2146971344","https://openalex.org/W2165334338","https://openalex.org/W2170989872","https://openalex.org/W2582743722","https://openalex.org/W4239632189"],"related_works":["https://openalex.org/W2188430267","https://openalex.org/W2610698896","https://openalex.org/W2369265144","https://openalex.org/W1575672096","https://openalex.org/W2161219919","https://openalex.org/W28439884","https://openalex.org/W2753866198","https://openalex.org/W2798919479","https://openalex.org/W2090049157","https://openalex.org/W2096302356"],"abstract_inverted_index":{"BACKGROUND:":[0],"Pre-processing":[1],"methods":[2,48,165],"for":[3,54,92,159,262,282],"two-sample":[4],"long":[5],"oligonucleotide":[6],"arrays,":[7,94],"specifically":[8],"the":[9,27,52,108,204,227],"Agilent":[10,37,93,160],"technology,":[11],"have":[12,50],"not":[13,143,273],"been":[14],"extensively":[15],"studied.":[16],"The":[17,80],"goal":[18,82],"of":[19,26,29,34,56,127,154,186,203,259],"this":[20],"study":[21,87],"is":[22,83,142],"to":[23,40,84,247],"quantify":[24],"some":[25,98],"sources":[28],"error":[30,169],"that":[31,49,132,220,235,294],"affect":[32],"measurement":[33],"expression":[35,225,261],"using":[36],"arrays":[38],"and":[39,72,89,95,147,232,268,271],"compare":[41],"Agilent's":[42,241],"Feature":[43],"Extraction":[44],"software":[45],"with":[46,67,157],"pre-processing":[47,90,205],"become":[51],"standard":[53,257],"normalization":[55,66,78,103,146,210],"cDNA":[57],"arrays.":[58],"These":[59],"include":[60],"log":[61],"transformation":[62],"followed":[63],"by":[64,174],"loess":[65,102,209],"or":[68,176,180,298],"without":[69,104,112,211],"background":[70,105,113,141,149,212],"subtraction":[71,106,150,213],"often":[73],"a":[74,128,256,299],"between":[75],"array":[76,286],"scale":[77],"procedure.":[79],"larger":[81],"define":[85],"best":[86],"design":[88,293],"practices":[91],"we":[96],"offer":[97],"suggestions.":[99],"RESULTS:":[100],"Simple":[101,208],"produced":[107],"lowest":[109],"variability.":[110],"However,":[111,196],"subtraction,":[114],"fold":[115,162,218,253],"changes":[116,219,254],"were":[117,199],"biased":[118],"towards":[119],"zero,":[120],"particularly":[121],"at":[122],"low":[123,216],"intensities.":[124],"ROC":[125],"analysis":[126],"spike-in":[129],"experiment":[130],"showed":[131,188],"differentially":[133,250],"expressed":[134,251],"genes":[135,187],"are":[136,255,280,288],"most":[137,283],"reliably":[138,222,248],"detected":[139],"when":[140,168],"subtracted.":[144],"Loess":[145],"no":[148],"yielded":[151],"an":[152,291],"AUC":[153],"99.7%":[155],"compared":[156],"88.8%":[158],"processed":[161],"changes.":[163],"All":[164],"performed":[166],"well":[167],"was":[170],"taken":[171],"into":[172,238],"account":[173],"t-":[175],"z-statistics,":[177],"AUCs":[178],">":[179],"=":[181],"99.8%.":[182],"A":[183],"substantial":[184],"proportion":[185],"dye":[189,278,296],"effects,":[190],"43%":[191],"(99%":[192],"CI:":[193],"39%,":[194],"47%).":[195],"these":[197],"effects":[198,279],"generally":[200],"small":[201,281],"regardless":[202],"method.":[206],"CONCLUSION:":[207],"resulted":[214],"in":[215],"variance":[217],"more":[221],"ranked":[223],"gene":[224],"than":[226],"other":[228,233],"methods.":[229],"While":[230],"t-statistics":[231],"measures":[234],"take":[236],"variation":[237],"account,":[239],"including":[240],"z-statistic,":[242],"can":[243,272],"also":[244],"be":[245,274,303],"used":[246],"select":[249],"genes,":[252,284],"measure":[258],"differential":[260],"exploratory":[263],"work,":[264],"cross":[265],"platform":[266],"comparison,":[267],"biological":[269],"interpretation":[270],"entirely":[275],"replaced.":[276],"Although":[277],"many":[285],"features":[287],"affected.":[289],"Therefore,":[290],"experimental":[292],"incorporates":[295],"swaps":[297],"common":[300],"reference":[301],"could":[302],"valuable.":[304]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":9},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":12},{"year":2020,"cited_by_count":8},{"year":2019,"cited_by_count":12},{"year":2018,"cited_by_count":8},{"year":2017,"cited_by_count":16},{"year":2016,"cited_by_count":7},{"year":2015,"cited_by_count":14},{"year":2014,"cited_by_count":17},{"year":2013,"cited_by_count":14},{"year":2012,"cited_by_count":14}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}
