{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,22]],"date-time":"2026-04-22T03:21:15Z","timestamp":1776828075876,"version":"3.51.2"},"reference-count":20,"publisher":"Oxford University Press (OUP)","issue":"23","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":3278,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.0\/uk\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2007,12,1]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Motivation: The process of producing microarray data involves multiple steps, some of which may suffer from technical problems and seriously damage the quality of the data. Thus, it is essential to identify those arrays with low quality. This article addresses two questions: (1) how to assess the quality of a microarray dataset using the measures provided in quality control (QC) reports; (2) how to identify possible sources of the quality problems.<\/jats:p><jats:p>Results: We propose a novel multivariate approach to evaluate the quality of an array that examines the \u2018Mahalanobis distance\u2019 of its quality attributes from those of other arrays. Thus, we call it Mahalanobis Distance Quality Control (MDQC) and examine different approaches of this method. MDQC flags problematic arrays based on the idea of outlier detection, i.e. it flags those arrays whose quality attributes jointly depart from those of the bulk of the data. Using two case studies, we show that a multivariate analysis gives substantially richer information than analyzing each parameter of the QC report in isolation. Moreover, once the QC report is produced, our quality assessment method is computationally inexpensive and the results can be easily visualized and interpreted. Finally, we show that computing these distances on subsets of the quality measures in the report may increase the method's ability to detect unusual arrays and helps to identify possible reasons of the quality problems.<\/jats:p><jats:p>Availability: The library to implement MDQC will soon be available from Bioconductor<\/jats:p><jats:p>Contact: \u00a0gcohen@mrl.ubc.ca<\/jats:p><jats:p>Supplementary information: Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btm487","type":"journal-article","created":{"date-parts":[[2007,10,13]],"date-time":"2007-10-13T00:33:48Z","timestamp":1192235628000},"page":"3162-3169","source":"Crossref","is-referenced-by-count":35,"title":["MDQC: a new quality assessment method for microarrays based on quality control reports"],"prefix":"10.1093","volume":"23","author":[{"given":"Gabriela V.","family":"Cohen Freue","sequence":"first","affiliation":[{"name":"1 Department of Computer Science, 2Department of Statistics, 3Department of Pathology and Laboratory Medicine, 4Department of Medicine, 5Department of Medical Genetics, University of British Columbia, 6The James Hogg iCAPTURE Centre, Providence Health Care-University of British Columbia, 7Novartis Pharma AG, Basel and 8Vancouver Coastal Health Research Institute, Vancouver, British Columbia, Canada"},{"name":"1 Department of Computer Science, 2Department of Statistics, 3Department of Pathology and Laboratory Medicine, 4Department of Medicine, 5Department of Medical Genetics, University of British Columbia, 6The James Hogg iCAPTURE Centre, Providence Health Care-University of British Columbia, 7Novartis Pharma AG, Basel and 8Vancouver Coastal Health Research Institute, Vancouver, British Columbia, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zsuzsanna","family":"Hollander","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, 2Department of Statistics, 3Department of Pathology and 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Department of Computer Science, 2Department of Statistics, 3Department of Pathology and Laboratory Medicine, 4Department of Medicine, 5Department of Medical Genetics, University of British Columbia, 6The James Hogg iCAPTURE Centre, Providence Health Care-University of British Columbia, 7Novartis Pharma AG, Basel and 8Vancouver Coastal Health Research Institute, Vancouver, British Columbia, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Robert","family":"Balshaw","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, 2Department of Statistics, 3Department of Pathology and Laboratory Medicine, 4Department of Medicine, 5Department of Medical Genetics, University of British Columbia, 6The James Hogg iCAPTURE Centre, Providence Health Care-University of British Columbia, 7Novartis Pharma AG, Basel and 8Vancouver Coastal Health Research Institute, Vancouver, British Columbia, 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