{"id":"https://openalex.org/W2141985175","doi":"https://doi.org/10.1093/bioinformatics/btu028","title":"CAFE: an R package for the detection of gross chromosomal abnormalities from gene expression microarray data","display_name":"CAFE: an R package for the detection of gross chromosomal abnormalities from gene expression microarray data","publication_year":2014,"publication_date":"2014-01-21","ids":{"openalex":"https://openalex.org/W2141985175","doi":"https://doi.org/10.1093/bioinformatics/btu028","mag":"2141985175","pmid":"https://pubmed.ncbi.nlm.nih.gov/24451624"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btu028","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu028","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/10/1484/49860412/bioinformatics_30_10_1484.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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/30/10/1484/49860412/bioinformatics_30_10_1484.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5065436024","display_name":"Sander Bollen","orcid":null},"institutions":[{"id":"https://openalex.org/I205582932","display_name":"Max Delbr\u00fcck Center","ror":"https://ror.org/04p5ggc03","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I205582932"]},{"id":"https://openalex.org/I193662353","display_name":"Utrecht University","ror":"https://ror.org/04pp8hn57","country_code":"NL","type":"education","lineage":["https://openalex.org/I193662353"]}],"countries":["DE","NL"],"is_corresponding":true,"raw_author_name":"Sander Bollen","raw_affiliation_strings":["1 Computational Biology and Data Mining Group, Max Delbruck Center for Molecular Medicine, 13125 Berlin, Germany, 2Graduate School of Life Sciences, Utrecht University, Universiteitsweg 98, 3584 CG, Utrecht, the Netherlands and 3Roche Diagnostics GmbH, 82377 Penzberg, Germany"],"affiliations":[{"raw_affiliation_string":"1 Computational Biology and Data Mining Group, Max Delbruck Center for Molecular Medicine, 13125 Berlin, Germany, 2Graduate School of Life Sciences, Utrecht University, Universiteitsweg 98, 3584 CG, Utrecht, the Netherlands and 3Roche Diagnostics GmbH, 82377 Penzberg, Germany","institution_ids":["https://openalex.org/I205582932","https://openalex.org/I193662353"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090186448","display_name":"Mathias Leddin","orcid":"https://orcid.org/0000-0001-9732-042X"},"institutions":[{"id":"https://openalex.org/I205582932","display_name":"Max Delbr\u00fcck Center","ror":"https://ror.org/04p5ggc03","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I205582932"]},{"id":"https://openalex.org/I193662353","display_name":"Utrecht University","ror":"https://ror.org/04pp8hn57","country_code":"NL","type":"education","lineage":["https://openalex.org/I193662353"]}],"countries":["DE","NL"],"is_corresponding":false,"raw_author_name":"Mathias Leddin","raw_affiliation_strings":["1 Computational Biology and Data Mining Group, Max Delbruck Center for Molecular Medicine, 13125 Berlin, Germany, 2Graduate School of Life Sciences, Utrecht University, Universiteitsweg 98, 3584 CG, Utrecht, the Netherlands and 3Roche Diagnostics GmbH, 82377 Penzberg, Germany"],"affiliations":[{"raw_affiliation_string":"1 Computational Biology and Data Mining Group, Max Delbruck Center for Molecular Medicine, 13125 Berlin, Germany, 2Graduate School of Life Sciences, Utrecht University, Universiteitsweg 98, 3584 CG, Utrecht, the Netherlands and 3Roche Diagnostics GmbH, 82377 Penzberg, Germany","institution_ids":["https://openalex.org/I205582932","https://openalex.org/I193662353"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010178662","display_name":"Miguel A. Andrade\u2010Navarro","orcid":"https://orcid.org/0000-0001-6650-1711"},"institutions":[{"id":"https://openalex.org/I193662353","display_name":"Utrecht University","ror":"https://ror.org/04pp8hn57","country_code":"NL","type":"education","lineage":["https://openalex.org/I193662353"]},{"id":"https://openalex.org/I205582932","display_name":"Max Delbr\u00fcck Center","ror":"https://ror.org/04p5ggc03","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I205582932"]}],"countries":["DE","NL"],"is_corresponding":false,"raw_author_name":"Miguel A. Andrade-Navarro","raw_affiliation_strings":["1 Computational Biology and Data Mining Group, Max Delbruck Center for Molecular Medicine, 13125 Berlin, Germany, 2Graduate School of Life Sciences, Utrecht University, Universiteitsweg 98, 3584 CG, Utrecht, the Netherlands and 3Roche Diagnostics GmbH, 82377 Penzberg, Germany"],"affiliations":[{"raw_affiliation_string":"1 Computational Biology and Data Mining Group, Max Delbruck Center for Molecular Medicine, 13125 Berlin, Germany, 2Graduate School of Life Sciences, Utrecht University, Universiteitsweg 98, 3584 CG, Utrecht, the Netherlands and 3Roche Diagnostics GmbH, 82377 Penzberg, Germany","institution_ids":["https://openalex.org/I205582932","https://openalex.org/I193662353"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5015763581","display_name":"Nancy Mah","orcid":"https://orcid.org/0000-0002-1240-8076"},"institutions":[{"id":"https://openalex.org/I205582932","display_name":"Max Delbr\u00fcck Center","ror":"https://ror.org/04p5ggc03","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I205582932"]},{"id":"https://openalex.org/I193662353","display_name":"Utrecht University","ror":"https://ror.org/04pp8hn57","country_code":"NL","type":"education","lineage":["https://openalex.org/I193662353"]}],"countries":["DE","NL"],"is_corresponding":false,"raw_author_name":"Nancy Mah","raw_affiliation_strings":["1 Computational Biology and Data Mining Group, Max Delbruck Center for Molecular Medicine, 13125 Berlin, Germany, 2Graduate School of Life Sciences, Utrecht University, Universiteitsweg 98, 3584 CG, Utrecht, the Netherlands and 3Roche Diagnostics GmbH, 82377 Penzberg, Germany"],"affiliations":[{"raw_affiliation_string":"1 Computational Biology and Data Mining Group, Max Delbruck Center for Molecular Medicine, 13125 Berlin, Germany, 2Graduate School of Life Sciences, Utrecht University, Universiteitsweg 98, 3584 CG, Utrecht, the Netherlands and 3Roche Diagnostics GmbH, 82377 Penzberg, Germany","institution_ids":["https://openalex.org/I205582932","https://openalex.org/I193662353"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5065436024"],"corresponding_institution_ids":["https://openalex.org/I193662353","https://openalex.org/I205582932"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":1800,"currency":"EUR","value_usd":1941},"fwci":0.1426,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.55562578,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"30","issue":"10","first_page":"1484","last_page":"1485"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9987000226974487,"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":0.9987000226974487,"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/T10062","display_name":"MicroRNA in disease regulation","score":0.9940999746322632,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11482","display_name":"RNA modifications and cancer","score":0.9879000186920166,"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/r-package","display_name":"R package","score":0.7000542283058167},{"id":"https://openalex.org/keywords/microarray","display_name":"Microarray","score":0.5939554572105408},{"id":"https://openalex.org/keywords/microarray-databases","display_name":"Microarray databases","score":0.5939122438430786},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.5632097721099854},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5541399121284485},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.5282389521598816},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5251654982566833},{"id":"https://openalex.org/keywords/microarray-analysis-techniques","display_name":"Microarray analysis techniques","score":0.515040397644043},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4726385474205017},{"id":"https://openalex.org/keywords/software-package","display_name":"Software package","score":0.4722394645214081},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.46758127212524414},{"id":"https://openalex.org/keywords/expression","display_name":"Expression (computer science)","score":0.45143821835517883},{"id":"https://openalex.org/keywords/gene-expression-profiling","display_name":"Gene expression profiling","score":0.43118536472320557},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3623183071613312},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.2742997407913208},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.09017994999885559}],"concepts":[{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.7000542283058167},{"id":"https://openalex.org/C186836561","wikidata":"https://www.wikidata.org/wiki/Q1931516","display_name":"Microarray","level":4,"score":0.5939554572105408},{"id":"https://openalex.org/C548314002","wikidata":"https://www.wikidata.org/wiki/Q6839218","display_name":"Microarray databases","level":5,"score":0.5939122438430786},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.5632097721099854},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5541399121284485},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.5282389521598816},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5251654982566833},{"id":"https://openalex.org/C8415881","wikidata":"https://www.wikidata.org/wiki/Q6839217","display_name":"Microarray analysis techniques","level":4,"score":0.515040397644043},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4726385474205017},{"id":"https://openalex.org/C3020440742","wikidata":"https://www.wikidata.org/wiki/Q1176855","display_name":"Software package","level":3,"score":0.4722394645214081},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.46758127212524414},{"id":"https://openalex.org/C90559484","wikidata":"https://www.wikidata.org/wiki/Q778379","display_name":"Expression (computer science)","level":2,"score":0.45143821835517883},{"id":"https://openalex.org/C18431079","wikidata":"https://www.wikidata.org/wiki/Q1502169","display_name":"Gene expression profiling","level":4,"score":0.43118536472320557},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3623183071613312},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.2742997407913208},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.09017994999885559}],"mesh":[{"descriptor_ui":"D002869","descriptor_name":"Chromosome Aberrations","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002869","descriptor_name":"Chromosome Aberrations","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002869","descriptor_name":"Chromosome Aberrations","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","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}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btu028","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu028","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/10/1484/49860412/bioinformatics_30_10_1484.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:24451624","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24451624","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:4016701","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4016701","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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:edoc.mdc-berlin.de:13837","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306400224","display_name":"MDC Repository (Max-Delbrueck-Center for Molecular Medicine)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I149899117","host_organization_name":"Max Planck Society","host_organization_lineage":["https://openalex.org/I149899117"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:europepmc.org:2994895","is_oa":false,"landing_page_url":"http://europepmc.org/articles/PMC4016701","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":"","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btu028","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu028","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/10/1484/49860412/bioinformatics_30_10_1484.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2141985175.pdf","grobid_xml":"https://content.openalex.org/works/W2141985175.grobid-xml"},"referenced_works_count":6,"referenced_works":["https://openalex.org/W1587026990","https://openalex.org/W1983257493","https://openalex.org/W1996659151","https://openalex.org/W2117692326","https://openalex.org/W2163404991","https://openalex.org/W4230096730"],"related_works":["https://openalex.org/W2943416042","https://openalex.org/W1544923801","https://openalex.org/W3152114242","https://openalex.org/W4389426664","https://openalex.org/W77579337","https://openalex.org/W2490137852","https://openalex.org/W2056932428","https://openalex.org/W3023720143","https://openalex.org/W1483316219","https://openalex.org/W2412120523"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":3},{"year":2022,"cited_by_count":1},{"year":2015,"cited_by_count":1}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
