{"id":"https://openalex.org/W2006641400","doi":"https://doi.org/10.1186/1471-2105-9-85","title":"Statistical issues in the analysis of Illumina data","display_name":"Statistical issues in the analysis of Illumina data","publication_year":2008,"publication_date":"2008-02-06","ids":{"openalex":"https://openalex.org/W2006641400","doi":"https://doi.org/10.1186/1471-2105-9-85","mag":"2006641400","pmid":"https://pubmed.ncbi.nlm.nih.gov/18254947"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-9-85","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-85","pdf_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-9-85.pdf","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://link.springer.com/content/pdf/10.1186/1471-2105-9-85.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5019280940","display_name":"Mark Dunning","orcid":"https://orcid.org/0000-0002-8853-9435"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]},{"id":"https://openalex.org/I2801316944","display_name":"Cancer Research UK","ror":"https://ror.org/054225q67","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I2801316944"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Mark J Dunning","raw_affiliation_strings":["Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge CB2 0RE, UK. md392@cam.ac.uk","Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge CB2 0RE, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge CB2 0RE, UK. md392@cam.ac.uk","institution_ids":["https://openalex.org/I241749","https://openalex.org/I2801316944"]},{"raw_affiliation_string":"Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge CB2 0RE, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006220828","display_name":"Nuno L. Barbosa\u2010Morais","orcid":"https://orcid.org/0000-0002-1215-0538"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Nuno L Barbosa-Morais","raw_affiliation_strings":["Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK","Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Robinson Way, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Robinson Way, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013513032","display_name":"Andy G. Lynch","orcid":"https://orcid.org/0000-0002-7876-7338"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Andy G Lynch","raw_affiliation_strings":["Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK","Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Robinson Way, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Robinson Way, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058999096","display_name":"Simon Tavar\u00e9","orcid":"https://orcid.org/0000-0002-3716-4952"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Simon Tavar\u00e9","raw_affiliation_strings":["Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK","Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Robinson Way, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Robinson Way, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5015434839","display_name":"Matthew E. Ritchie","orcid":"https://orcid.org/0000-0002-7383-0609"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]},{"id":"https://openalex.org/I4210130016","display_name":"Lymphatic Education & Research Network","ror":"https://ror.org/03ahv9t97","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210130016"]}],"countries":["GB","US"],"is_corresponding":false,"raw_author_name":"Matthew E Ritchie","raw_affiliation_strings":["Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK","CRUK Cambridge Research Institute"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Oncology, University of Cambridge, CRUK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"CRUK Cambridge Research Institute","institution_ids":["https://openalex.org/I4210130016"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5019280940"],"corresponding_institution_ids":["https://openalex.org/I241749","https://openalex.org/I2801316944"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":6.2385,"has_fulltext":true,"cited_by_count":104,"citation_normalized_percentile":{"value":0.97314256,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":93,"max":99},"biblio":{"volume":"9","issue":"1","first_page":"85","last_page":"85"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.6830999851226807,"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":0.6830999851226807,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.16110000014305115,"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":0.007000000216066837,"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/raw-data","display_name":"Raw data","score":0.675163745880127},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6149408221244812},{"id":"https://openalex.org/keywords/outlier","display_name":"Outlier","score":0.6079354882240295},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5894020795822144},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5596593022346497},{"id":"https://openalex.org/keywords/replication","display_name":"Replication (statistics)","score":0.41579994559288025},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.35400569438934326},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.16507166624069214},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.13624119758605957}],"concepts":[{"id":"https://openalex.org/C132964779","wikidata":"https://www.wikidata.org/wiki/Q2110223","display_name":"Raw data","level":2,"score":0.675163745880127},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6149408221244812},{"id":"https://openalex.org/C79337645","wikidata":"https://www.wikidata.org/wiki/Q779824","display_name":"Outlier","level":2,"score":0.6079354882240295},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5894020795822144},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5596593022346497},{"id":"https://openalex.org/C12590798","wikidata":"https://www.wikidata.org/wiki/Q3933199","display_name":"Replication (statistics)","level":2,"score":0.41579994559288025},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.35400569438934326},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.16507166624069214},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.13624119758605957},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012680","descriptor_name":"Sensitivity and Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012680","descriptor_name":"Sensitivity and Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012680","descriptor_name":"Sensitivity and Specificity","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":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016477","descriptor_name":"Artifacts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1186/1471-2105-9-85","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-85","pdf_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-9-85.pdf","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:18254947","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18254947","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:jupiter.its.unimelb.edu.au:11343/256748","is_oa":true,"landing_page_url":"http://hdl.handle.net/11343/256748","pdf_url":"http://hdl.handle.net/11343/256748","source":{"id":"https://openalex.org/S4377196259","display_name":"Minerva Access (University of Melbourne)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I165779595","host_organization_name":"The University of Melbourne","host_organization_lineage":["https://openalex.org/I165779595"],"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":"","raw_type":"Journal Article"},{"id":"pmh:oai:doaj.org/article:4619267637854fc296b1726e194520db","is_oa":false,"landing_page_url":"https://doaj.org/article/4619267637854fc296b1726e194520db","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 9, Iss 1, p 85 (2008)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2291044","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2291044","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:10.1186/1471-2105-9-85","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-85","pdf_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-9-85.pdf","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/G2864965629","display_name":null,"funder_award_id":"C14303","funder_id":"https://openalex.org/F4320319985","funder_display_name":"Cancer Research UK"},{"id":"https://openalex.org/G728263667","display_name":null,"funder_award_id":"C14303/A8646","funder_id":"https://openalex.org/F4320319985","funder_display_name":"Cancer Research UK"}],"funders":[{"id":"https://openalex.org/F4320319985","display_name":"Cancer Research UK","ror":"https://ror.org/054225q67"},{"id":"https://openalex.org/F4320322909","display_name":"Isaac Newton Trust","ror":"https://ror.org/02gn6ta77"},{"id":"https://openalex.org/F4320334626","display_name":"Medical Research Council","ror":"https://ror.org/03x94j517"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2006641400.pdf","grobid_xml":"https://content.openalex.org/works/W2006641400.grobid-xml"},"referenced_works_count":18,"referenced_works":["https://openalex.org/W1979018234","https://openalex.org/W2001074584","https://openalex.org/W2081098333","https://openalex.org/W2100637689","https://openalex.org/W2109178214","https://openalex.org/W2110112697","https://openalex.org/W2116449269","https://openalex.org/W2119274294","https://openalex.org/W2125821068","https://openalex.org/W2135827569","https://openalex.org/W2150934173","https://openalex.org/W2157795344","https://openalex.org/W2160697532","https://openalex.org/W2163451322","https://openalex.org/W2164216268","https://openalex.org/W2164604555","https://openalex.org/W2916427899","https://openalex.org/W4294107304"],"related_works":["https://openalex.org/W3006513224","https://openalex.org/W2046456988","https://openalex.org/W4205713785","https://openalex.org/W3016766501","https://openalex.org/W2901033488","https://openalex.org/W2357409937","https://openalex.org/W2978674666","https://openalex.org/W2074430941","https://openalex.org/W2113096305","https://openalex.org/W2354111411"],"abstract_inverted_index":{"BACKGROUND:":[0],"Illumina":[1,30,46,75,205,275],"bead-based":[2],"arrays":[3],"are":[4,101,105,191],"becoming":[5],"increasingly":[6],"popular":[7],"due":[8],"to":[9,26,55,169,184,235],"their":[10],"high":[11,17],"degree":[12],"of":[13,29,39,213,217,252],"replication":[14],"and":[15,49,79,104,178,199,246],"reported":[16],"data":[18,43,58,118,158,207,238,257],"quality.":[19],"However,":[20,113],"little":[21],"attention":[22],"has":[23],"been":[24],"paid":[25],"the":[27,41,70,125,132,156,166,214,222,236,250],"pre-processing":[28],"data.":[31,127],"In":[32,249],"this":[33,64,81],"paper,":[34],"we":[35,129],"present":[36,123],"our":[37],"experience":[38],"analysing":[40],"raw":[42,126,157,237],"from":[44,155],"an":[45,262],"spike-in":[47],"experiment":[48],"offer":[50],"guidelines":[51],"for":[52,63,85,194,240,273],"those":[53],"wishing":[54],"analyse":[56],"expression":[57,88,176,206,255],"or":[59],"develop":[60],"new":[61],"methodologies":[62],"technology.":[65],"RESULTS:":[66],"We":[67,150],"find":[68,130],"that":[69,131,152],"local":[71],"background":[72,82,133,232],"estimated":[73],"by":[74,195,221,229],"is":[76,83,210],"consistently":[77],"low,":[78],"subtracting":[80],"beneficial":[84],"detecting":[86],"differential":[87],"(DE).":[89],"Illumina's":[90,138],"summary":[91,111,218],"method":[92,135],"performs":[93],"well":[94],"at":[95],"removing":[96],"outliers,":[97],"producing":[98],"estimates":[99,216],"which":[100],"less":[102,106],"biased":[103],"variable":[107],"than":[108],"other":[109,274],"robust":[110],"methods.":[112],"quality":[114,244],"assessment":[115,245],"on":[116,261],"summarised":[117],"may":[119],"miss":[120],"spatial":[121],"artefacts":[122],"in":[124,137,165,174,186],"Also,":[128],"normalisation":[134],"used":[136,161],"proprietary":[139],"software":[140],"(BeadStudio)":[141],"can":[142,159,181,225,258,270],"cause":[143],"problems":[144],"with":[145],"a":[146,241,253],"standard":[147],"DE":[148,167,179],"analysis.":[149],"demonstrate":[151],"variances":[153],"calculated":[154],"be":[160,182,227,259,271],"as":[162],"inverse":[163],"weights":[164],"analysis":[168,197],"improve":[170],"power.":[171],"Finally,":[172],"variability":[173],"both":[175],"levels":[177],"statistics":[180],"attributed":[183],"differences":[185,190],"probe":[187],"composition.":[188],"These":[189],"not":[192,230],"accounted":[193],"current":[196],"methods":[198],"require":[200],"further":[201],"investigation.":[202],"CONCLUSION:":[203],"Analysing":[204],"using":[208,231,265],"BeadStudio":[209],"reasonable":[211],"because":[212],"conservative":[215],"values":[219],"produced":[220],"software.":[223],"Improvements":[224],"however":[226],"made":[228],"normalisation.":[233],"Access":[234],"allows":[239],"more":[242],"detailed":[243],"flexible":[247],"analyses.":[248],"case":[251],"gene":[254],"study,":[256],"analysed":[260],"appropriate":[263],"scale":[264],"established":[266],"tools.":[267],"Similar":[268],"improvements":[269],"expected":[272],"assays.":[276]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":3},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":6},{"year":2016,"cited_by_count":5},{"year":2015,"cited_by_count":4},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":10},{"year":2012,"cited_by_count":8}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
