{"id":"https://openalex.org/W2137075021","doi":"https://doi.org/10.1093/bioinformatics/btl093","title":"ProMAT: protein microarray analysis tool","display_name":"ProMAT: protein microarray analysis tool","publication_year":2006,"publication_date":"2006-04-04","ids":{"openalex":"https://openalex.org/W2137075021","doi":"https://doi.org/10.1093/bioinformatics/btl093","mag":"2137075021","pmid":"https://pubmed.ncbi.nlm.nih.gov/16595561"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btl093","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btl093","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/22/10/1278/48837804/bioinformatics_22_10_1278.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/22/10/1278/48837804/bioinformatics_22_10_1278.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5104360622","display_name":"Amanda M. White","orcid":null},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Amanda M. White","raw_affiliation_strings":["Statistical Sciences, Pacific Northwest National Laboratory 1 \u00a0 1 \u00a0 \u00a0 Richland, WA 99354, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Statistical Sciences, Pacific Northwest National Laboratory 1 \u00a0 1 \u00a0 \u00a0 Richland, WA 99354, USA","institution_ids":["https://openalex.org/I142606810"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102187522","display_name":"Don S. Daly","orcid":null},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Don S. Daly","raw_affiliation_strings":["Statistical Sciences, Pacific Northwest National Laboratory 1 \u00a0 1 \u00a0 \u00a0 Richland, WA 99354, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Statistical Sciences, Pacific Northwest National Laboratory 1 \u00a0 1 \u00a0 \u00a0 Richland, WA 99354, USA","institution_ids":["https://openalex.org/I142606810"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006724040","display_name":"Susan M. Varnum","orcid":null},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Susan M. Varnum","raw_affiliation_strings":["Cell Biology and Biochemistry, Pacific Northwest National Laboratory 2 \u00a0 2 \u00a0 \u00a0 Richland, WA 99354, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cell Biology and Biochemistry, Pacific Northwest National Laboratory 2 \u00a0 2 \u00a0 \u00a0 Richland, WA 99354, USA","institution_ids":["https://openalex.org/I142606810"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087146225","display_name":"Kevin K. Anderson","orcid":"https://orcid.org/0000-0001-5613-5893"},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kevin K. Anderson","raw_affiliation_strings":["Decision and Sensor Analytics, Pacific Northwest National Laboratory 3 \u00a0 3 \u00a0 \u00a0 Richland, WA 99354, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Decision and Sensor Analytics, Pacific Northwest National Laboratory 3 \u00a0 3 \u00a0 \u00a0 Richland, WA 99354, USA","institution_ids":["https://openalex.org/I142606810"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063978891","display_name":"Nikki Bollinger","orcid":null},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nikki Bollinger","raw_affiliation_strings":["Cell Biology and Biochemistry, Pacific Northwest National Laboratory 2 \u00a0 2 \u00a0 \u00a0 Richland, WA 99354, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cell Biology and Biochemistry, Pacific Northwest National Laboratory 2 \u00a0 2 \u00a0 \u00a0 Richland, WA 99354, USA","institution_ids":["https://openalex.org/I142606810"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5080611452","display_name":"Richard C. Zangar","orcid":null},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Richard C. Zangar","raw_affiliation_strings":["Cell Biology and Biochemistry, Pacific Northwest National Laboratory 2 \u00a0 2 \u00a0 \u00a0 Richland, WA 99354, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cell Biology and Biochemistry, Pacific Northwest National Laboratory 2 \u00a0 2 \u00a0 \u00a0 Richland, WA 99354, USA","institution_ids":["https://openalex.org/I142606810"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5104360622"],"corresponding_institution_ids":["https://openalex.org/I142606810"],"apc_list":{"value":3989,"currency":"USD","value_usd":3989},"apc_paid":null,"fwci":1.1539,"has_fulltext":true,"cited_by_count":35,"citation_normalized_percentile":{"value":0.7635272,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":97},"biblio":{"volume":"22","issue":"10","first_page":"1278","last_page":"1279"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9997000098228455,"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":0.9997000098228455,"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":0.9988999962806702,"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/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9926000237464905,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5324163436889648},{"id":"https://openalex.org/keywords/microarray-analysis-techniques","display_name":"Microarray analysis techniques","score":0.5020277500152588},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5001325607299805},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23958730697631836},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.14435967803001404},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.11491861939430237},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.06811779737472534}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5324163436889648},{"id":"https://openalex.org/C8415881","wikidata":"https://www.wikidata.org/wiki/Q6839217","display_name":"Microarray analysis techniques","level":4,"score":0.5020277500152588},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5001325607299805},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23958730697631836},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.14435967803001404},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11491861939430237},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.06811779737472534}],"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":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004797","descriptor_name":"Enzyme-Linked Immunosorbent Assay","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D004797","descriptor_name":"Enzyme-Linked Immunosorbent Assay","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D004797","descriptor_name":"Enzyme-Linked Immunosorbent Assay","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040081","descriptor_name":"Protein Array Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040081","descriptor_name":"Protein Array Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040081","descriptor_name":"Protein Array Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btl093","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btl093","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/22/10/1278/48837804/bioinformatics_22_10_1278.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:16595561","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/16595561","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":"Journal Article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.109.5295","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.109.5295","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://bioinformatics.oxfordjournals.org/cgi/reprint/btl093v1.pdf","raw_type":"text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btl093","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btl093","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/22/10/1278/48837804/bioinformatics_22_10_1278.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1095041162","display_name":null,"funder_award_id":"DE-AC06\u201376RL01830","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G1724155629","display_name":null,"funder_award_id":"76RL01830","funder_id":"https://openalex.org/F4320337547","funder_display_name":"Laboratory Directed Research and Development"},{"id":"https://openalex.org/G1828715329","display_name":null,"funder_award_id":"DE-AC06\u201376RL01830","funder_id":"https://openalex.org/F4320306250","funder_display_name":"Battelle"},{"id":"https://openalex.org/G2506945562","display_name":null,"funder_award_id":"76RL01830","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G5303665158","display_name":null,"funder_award_id":"DE\u2010AC06\u201076RL01830","funder_id":"https://openalex.org/F4320338354","funder_display_name":"Pacific Northwest National Laboratory"},{"id":"https://openalex.org/G5321382714","display_name":null,"funder_award_id":"76RL01830","funder_id":"https://openalex.org/F4320338354","funder_display_name":"Pacific Northwest National Laboratory"},{"id":"https://openalex.org/G5414142411","display_name":null,"funder_award_id":"CA117378","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320306250","display_name":"Battelle","ror":"https://ror.org/01h5tnr73"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337547","display_name":"Laboratory Directed Research and Development","ror":"https://ror.org/01e41cf67"},{"id":"https://openalex.org/F4320338354","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2137075021.pdf","grobid_xml":"https://content.openalex.org/works/W2137075021.grobid-xml"},"referenced_works_count":6,"referenced_works":["https://openalex.org/W1981370206","https://openalex.org/W2116555954","https://openalex.org/W2801840425","https://openalex.org/W2898519191","https://openalex.org/W4246673598","https://openalex.org/W4299837303"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655","https://openalex.org/W2359140296"],"abstract_inverted_index":{"SUMMARY:":[0],"ProMAT":[1,30,62,67,80],"is":[2,46,53,63],"a":[3,32],"software":[4,17],"tool":[5,45],"for":[6,27,37,48],"statistically":[7],"analyzing":[8],"data":[9],"from":[10],"enzyme-linked":[11],"immunosorbent":[12],"assay":[13],"microarray":[14],"experiments.":[15],"The":[16,44],"estimates":[18],"standard":[19],"curves,":[20],"sample":[21],"protein":[22],"concentrations":[23],"and":[24,40,52,58,72],"their":[25],"uncertainties":[26],"multiple":[28],"assays.":[29],"generates":[31],"set":[33],"of":[34],"comprehensive":[35],"figures":[36],"assessing":[38],"results":[39],"diagnosing":[41],"process":[42],"quality.":[43],"available":[47,64],"Windows":[49,83],"or":[50,85,89],"Mac,":[51],"distributed":[54],"as":[55],"open-source":[56],"Java":[57,69],"R":[59,73],"code.":[60],"AVAILABILITY:":[61],"at":[65],"http://www.pnl.gov/statistics/ProMAT.":[66],"requires":[68,81],"version":[70,74],"1.5.0":[71],"1.9.1":[75],"(or":[76],"more":[77],"recent":[78],"versions).":[79],"either":[82],"XP":[84],"Mac":[86],"OS":[87],"10.4":[88],"newer":[90],"versions.":[91]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":2}],"updated_date":"2026-08-26T07:47:46.906454","created_date":"2025-10-10T00:00:00"}
