{"id":"https://openalex.org/W2112381891","doi":"https://doi.org/10.1109/csb.2003.1227349","title":"A flexible pipeline for experimental design, processing, and analysis of microarray data","display_name":"A flexible pipeline for experimental design, processing, and analysis of microarray data","publication_year":2004,"publication_date":"2004-03-30","ids":{"openalex":"https://openalex.org/W2112381891","doi":"https://doi.org/10.1109/csb.2003.1227349","mag":"2112381891"},"language":"en","primary_location":{"id":"doi:10.1109/csb.2003.1227349","is_oa":false,"landing_page_url":"https://doi.org/10.1109/csb.2003.1227349","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computational Systems Bioinformatics. CSB2003. Proceedings of the 2003 IEEE Bioinformatics Conference. CSB2003","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5109923680","display_name":"S. B. Osborn","orcid":null},"institutions":[{"id":"https://openalex.org/I1296342797","display_name":"Pharmaceutical Product Development (United States)","ror":"https://ror.org/01sjx9496","country_code":"US","type":"company","lineage":["https://openalex.org/I1296342797"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"S. Osborn","raw_affiliation_strings":["PPD Discovery, Inc., Menlo Park, CA, USA","PPD Discovery, Menlo Park, CA, USA"],"affiliations":[{"raw_affiliation_string":"PPD Discovery, Inc., Menlo Park, CA, USA","institution_ids":["https://openalex.org/I1296342797"]},{"raw_affiliation_string":"PPD Discovery, Menlo Park, CA, USA","institution_ids":["https://openalex.org/I1296342797"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014875924","display_name":"Scot Kennedy","orcid":null},"institutions":[{"id":"https://openalex.org/I1296342797","display_name":"Pharmaceutical Product Development (United States)","ror":"https://ror.org/01sjx9496","country_code":"US","type":"company","lineage":["https://openalex.org/I1296342797"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"S. Kennedy","raw_affiliation_strings":["PPD Discovery, Inc., Menlo Park, CA, USA","PPD Discovery, Menlo Park, CA, USA"],"affiliations":[{"raw_affiliation_string":"PPD Discovery, Inc., Menlo Park, CA, USA","institution_ids":["https://openalex.org/I1296342797"]},{"raw_affiliation_string":"PPD Discovery, Menlo Park, CA, USA","institution_ids":["https://openalex.org/I1296342797"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5076088202","display_name":"Daniel J. Chin","orcid":"https://orcid.org/0000-0002-2266-9501"},"institutions":[{"id":"https://openalex.org/I1296342797","display_name":"Pharmaceutical Product Development (United States)","ror":"https://ror.org/01sjx9496","country_code":"US","type":"company","lineage":["https://openalex.org/I1296342797"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"D. Chin","raw_affiliation_strings":["PPD Discovery, Inc., Menlo Park, CA, USA","PPD Discovery, Menlo Park, CA, USA"],"affiliations":[{"raw_affiliation_string":"PPD Discovery, Inc., Menlo Park, CA, USA","institution_ids":["https://openalex.org/I1296342797"]},{"raw_affiliation_string":"PPD Discovery, Menlo Park, CA, USA","institution_ids":["https://openalex.org/I1296342797"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5109923680"],"corresponding_institution_ids":["https://openalex.org/I1296342797"],"apc_list":null,"apc_paid":null,"fwci":0.1169,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.48105435,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"411","last_page":"412"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9998000264167786,"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":0.9998000264167786,"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":0.991100013256073,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9804999828338623,"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/computer-science","display_name":"Computer science","score":0.8051190376281738},{"id":"https://openalex.org/keywords/xpath","display_name":"XPath","score":0.7381072044372559},{"id":"https://openalex.org/keywords/xquery","display_name":"XQuery","score":0.7352051734924316},{"id":"https://openalex.org/keywords/replicate","display_name":"Replicate","score":0.643413782119751},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.6237158179283142},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5409833192825317},{"id":"https://openalex.org/keywords/xml","display_name":"XML","score":0.4544345736503601},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.34895122051239014},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.33767518401145935},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.2506110668182373},{"id":"https://openalex.org/keywords/xml-database","display_name":"XML database","score":0.16079744696617126},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.11545982956886292}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8051190376281738},{"id":"https://openalex.org/C2780213375","wikidata":"https://www.wikidata.org/wiki/Q16340","display_name":"XPath","level":4,"score":0.7381072044372559},{"id":"https://openalex.org/C2780512708","wikidata":"https://www.wikidata.org/wiki/Q850661","display_name":"XQuery","level":4,"score":0.7352051734924316},{"id":"https://openalex.org/C2781162219","wikidata":"https://www.wikidata.org/wiki/Q26250693","display_name":"Replicate","level":2,"score":0.643413782119751},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.6237158179283142},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5409833192825317},{"id":"https://openalex.org/C8797682","wikidata":"https://www.wikidata.org/wiki/Q2115","display_name":"XML","level":2,"score":0.4544345736503601},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.34895122051239014},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.33767518401145935},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.2506110668182373},{"id":"https://openalex.org/C183068750","wikidata":"https://www.wikidata.org/wiki/Q357393","display_name":"XML database","level":3,"score":0.16079744696617126},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.11545982956886292},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/csb.2003.1227349","is_oa":false,"landing_page_url":"https://doi.org/10.1109/csb.2003.1227349","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computational Systems Bioinformatics. CSB2003. Proceedings of the 2003 IEEE Bioinformatics Conference. CSB2003","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.4099999964237213,"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":1,"referenced_works":["https://openalex.org/W1486283310"],"related_works":["https://openalex.org/W2355446901","https://openalex.org/W2486756614","https://openalex.org/W2073024456","https://openalex.org/W4213327256","https://openalex.org/W2062115694","https://openalex.org/W1997305375","https://openalex.org/W4252166815","https://openalex.org/W214946328","https://openalex.org/W4253215314","https://openalex.org/W4206947581"],"abstract_inverted_index":{"We":[0],"created":[1,14],"a":[2,82,130],"web-based":[3],"microarray":[4,17],"data":[5,13,25,61,120],"analysis":[6,40,121],"pipeline":[7],"for":[8],"managing":[9],"the":[10,39,46,56,102,124],"volumes":[11],"of":[12,60],"by":[15,22],"production":[16],"experiments.":[18],"Experiments":[19],"are":[20],"formalized":[21],"grouping":[23],"array":[24],"into":[26,69],"hierarchies":[27],"based":[28],"on":[29],"types":[30,70],"such":[31,71],"as":[32,72,113],"'dye":[33],"swap'":[34],"or":[35,74,96,111,122],"'replicate'.":[36],"Grouping":[37],"determines":[38],"to":[41,48,55,81,90,129],"be":[42,66,91,108,127],"performed":[43],"and":[44,52,106],"enables":[45,88],"tool":[47],"automatically":[49],"generate":[50],"reports":[51],"charts":[53],"appropriate":[54],"experiment":[57],"results.":[58],"Subsets":[59],"across":[62],"arrays":[63],"may":[64,107,126],"also":[65],"hierarchically":[67],"grouped":[68],"'gene'":[73],"'list'.":[75],"The":[76],"group":[77],"hierarchy":[78],"is":[79],"similar":[80],"document":[83],"object":[84],"model":[85],"(DOM),":[86],"which":[87],"queries":[89],"posed":[92],"in":[93],"an":[94],"XPath":[95],"XQuery":[97],"language.":[98],"Analyzer":[99],"modules":[100],"provide":[101],"complicated":[103],"statistical":[104],"processing":[105],"custom":[109],"written":[110],"implemented":[112],"wrappers":[114],"around":[115],"existing":[116],"tools.":[117],"For":[118],"speculative":[119],"publication,":[123],"results":[125],"exported":[128],"standard":[131],"format.":[132]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
