{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,14]],"date-time":"2026-06-14T08:27:14Z","timestamp":1781425634827,"version":"3.54.1"},"reference-count":32,"publisher":"Oxford University Press (OUP)","issue":"20","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2012,10,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: Image non-uniformity (NU) refers to systematic, slowly varying spatial gradients in images that result in a bias that can affect all downstream image processing, quantification and statistical analysis steps. Image NU is poorly modeled in the field of high-content screening (HCS), however, such that current conventional correction algorithms may be either inappropriate for HCS or fail to take advantage of the information available in HCS image data.<\/jats:p>\n               <jats:p>Results: A novel image NU bias correction algorithm, termed intensity quantile estimation and mapping (IQEM), is described. The algorithm estimates the full non-linear form of the image NU bias by mapping pixel intensities to a reference intensity quantile function. IQEM accounts for the variation in NU bias over broad cell intensity ranges and data acquisition times, both of which are characteristic of HCS image datasets. Validation of the method, using simulated and HCS microtubule polymerization screen images, is presented. Two requirements of IQEM are that the dataset consists of large numbers of images acquired under identical conditions and that cells are distributed with no within-image spatial preference.<\/jats:p>\n               <jats:p>Availability and implementation: MATLAB function files are available at http:\/\/nadon-mugqic.mcgill.ca\/.<\/jats:p>\n               <jats:p>Contact: \u00a0robert.nadon@mcgill.ca<\/jats:p>\n               <jats:p>Supplementary Information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/bts491","type":"journal-article","created":{"date-parts":[[2012,8,23]],"date-time":"2012-08-23T00:15:38Z","timestamp":1345680938000},"page":"2632-2639","source":"Crossref","is-referenced-by-count":4,"title":["Intensity quantile estimation and mapping\u2014a novel algorithm for the correction of image non-uniformity bias in HCS data"],"prefix":"10.1093","volume":"28","author":[{"given":"Ernest","family":"Lo","sequence":"first","affiliation":[{"name":"1 Department of Epidemiology, Biostatistics and Occupational Health, McGill University, Montreal, Quebec, Canada H3A 1A2 and 2McGill University and Genome Quebec Innovation Centre, Montreal, Quebec, Canada H3A 1A4, 3Institut de Recherches en Technologies et Sciences du Vivant, CEA, DSV, IRTSV, LBGE, CMBA and 4INSERM U1038, F-38054, Grenoble France, 5UJF-Grenoble 1, F-38041, France, 6D\u00e9partement Diff\u00e9renciation et Transformation Cellulaire, Institut Albert Bonniot, CRI INSERM\/UJF U823, Team 3 \u2018Polarity, Development and Cancer\u2019, Rond-point de la Chantourne, F-38706 La Tronche, France and 7Department of Human Genetics, McGill University, Montreal, Quebec, Canada H3A 1B1"},{"name":"1 Department of Epidemiology, Biostatistics and Occupational Health, McGill University, Montreal, Quebec, Canada H3A 1A2 and 2McGill University and Genome Quebec Innovation Centre, Montreal, Quebec, Canada H3A 1A4, 3Institut de Recherches en Technologies et Sciences du Vivant, CEA, DSV, IRTSV, LBGE, CMBA and 4INSERM U1038, F-38054, Grenoble France, 5UJF-Grenoble 1, F-38041, France, 6D\u00e9partement Diff\u00e9renciation et Transformation Cellulaire, Institut Albert Bonniot, CRI INSERM\/UJF U823, Team 3 \u2018Polarity, Development and Cancer\u2019, Rond-point de la Chantourne, F-38706 La Tronche, France and 7Department of Human Genetics, McGill University, Montreal, Quebec, Canada H3A 1B1"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Emmanuelle","family":"Soleilhac","sequence":"additional","affiliation":[{"name":"1 Department of Epidemiology, Biostatistics and Occupational Health, McGill University, Montreal, Quebec, Canada H3A 1A2 and 2McGill University and Genome Quebec Innovation Centre, Montreal, Quebec, Canada H3A 1A4, 3Institut de Recherches en Technologies et Sciences du Vivant, CEA, DSV, IRTSV, LBGE, CMBA and 4INSERM U1038, F-38054, Grenoble France, 5UJF-Grenoble 1, F-38041, France, 6D\u00e9partement Diff\u00e9renciation et Transformation Cellulaire, Institut Albert Bonniot, CRI INSERM\/UJF U823, Team 3 \u2018Polarity, Development and Cancer\u2019, Rond-point de la Chantourne, F-38706 La Tronche, France and 7Department of Human Genetics, McGill University, Montreal, Quebec, Canada H3A 1B1"},{"name":"1 Department of Epidemiology, Biostatistics and Occupational Health, McGill University, Montreal, Quebec, Canada H3A 1A2 and 2McGill University and Genome Quebec Innovation Centre, Montreal, Quebec, Canada H3A 1A4, 3Institut de Recherches en Technologies et Sciences du Vivant, CEA, DSV, IRTSV, LBGE, CMBA and 4INSERM U1038, F-38054, Grenoble France, 5UJF-Grenoble 1, F-38041, France, 6D\u00e9partement Diff\u00e9renciation et Transformation Cellulaire, Institut Albert Bonniot, CRI INSERM\/UJF U823, Team 3 \u2018Polarity, Development and Cancer\u2019, Rond-point de la Chantourne, F-38706 La Tronche, France and 7Department of Human Genetics, McGill University, Montreal, Quebec, Canada H3A 1B1"},{"name":"1 Department of Epidemiology, Biostatistics and Occupational Health, McGill University, Montreal, Quebec, Canada H3A 1A2 and 2McGill University and Genome Quebec Innovation Centre, Montreal, Quebec, Canada H3A 1A4, 3Institut de Recherches en Technologies et Sciences du Vivant, CEA, DSV, IRTSV, LBGE, CMBA and 4INSERM U1038, F-38054, Grenoble France, 5UJF-Grenoble 1, F-38041, France, 6D\u00e9partement Diff\u00e9renciation et Transformation Cellulaire, Institut Albert Bonniot, CRI INSERM\/UJF U823, Team 3 \u2018Polarity, Development and Cancer\u2019, Rond-point de la Chantourne, F-38706 La Tronche, France and 7Department of Human Genetics, McGill University, Montreal, Quebec, Canada H3A 1B1"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anne","family":"Martinez","sequence":"additional","affiliation":[{"name":"1 Department of Epidemiology, Biostatistics and Occupational Health, McGill University, Montreal, Quebec, Canada H3A 1A2 and 2McGill University and Genome Quebec Innovation Centre, Montreal, Quebec, Canada H3A 1A4, 3Institut de Recherches en Technologies et Sciences du Vivant, CEA, DSV, IRTSV, LBGE, CMBA and 4INSERM U1038, F-38054, Grenoble France, 5UJF-Grenoble 1, F-38041, France, 6D\u00e9partement Diff\u00e9renciation et Transformation Cellulaire, Institut Albert Bonniot, CRI INSERM\/UJF U823, Team 3 \u2018Polarity, Development and Cancer\u2019, Rond-point de la Chantourne, F-38706 La Tronche, France and 7Department of Human Genetics, McGill University, Montreal, Quebec, Canada H3A 1B1"},{"name":"1 Department of Epidemiology, Biostatistics and Occupational Health, McGill University, Montreal, Quebec, Canada H3A 1A2 and 2McGill University and Genome Quebec Innovation Centre, Montreal, Quebec, Canada H3A 1A4, 3Institut de Recherches en Technologies et Sciences du Vivant, CEA, DSV, IRTSV, LBGE, CMBA and 4INSERM U1038, F-38054, Grenoble France, 5UJF-Grenoble 1, F-38041, France, 6D\u00e9partement Diff\u00e9renciation et Transformation Cellulaire, Institut Albert Bonniot, CRI INSERM\/UJF U823, Team 3 \u2018Polarity, Development and Cancer\u2019, Rond-point de la Chantourne, F-38706 La Tronche, France and 7Department of Human Genetics, McGill University, Montreal, Quebec, Canada H3A 1B1"},{"name":"1 Department of Epidemiology, Biostatistics and Occupational Health, McGill University, Montreal, Quebec, Canada H3A 1A2 and 2McGill University and Genome Quebec Innovation Centre, Montreal, Quebec, Canada H3A 1A4, 3Institut de Recherches en Technologies et Sciences du Vivant, CEA, DSV, IRTSV, LBGE, CMBA and 4INSERM U1038, F-38054, Grenoble France, 5UJF-Grenoble 1, F-38041, France, 6D\u00e9partement Diff\u00e9renciation et Transformation Cellulaire, Institut Albert Bonniot, CRI INSERM\/UJF U823, Team 3 \u2018Polarity, Development and Cancer\u2019, Rond-point de la Chantourne, F-38706 La Tronche, France and 7Department of Human Genetics, McGill University, Montreal, Quebec, Canada H3A 1B1"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Laurence","family":"Lafanech\u00e8re","sequence":"additional","affiliation":[{"name":"1 Department of Epidemiology, Biostatistics and Occupational Health, McGill University, Montreal, Quebec, Canada H3A 1A2 and 2McGill University and Genome Quebec Innovation Centre, Montreal, Quebec, Canada H3A 1A4, 3Institut de Recherches en Technologies et Sciences du Vivant, CEA, DSV, IRTSV, LBGE, CMBA and 4INSERM U1038, F-38054, Grenoble France, 5UJF-Grenoble 1, F-38041, France, 6D\u00e9partement Diff\u00e9renciation et Transformation Cellulaire, Institut Albert Bonniot, CRI INSERM\/UJF U823, Team 3 \u2018Polarity, Development and Cancer\u2019, Rond-point de la Chantourne, F-38706 La Tronche, France and 7Department of Human Genetics, McGill University, Montreal, Quebec, Canada H3A 1B1"},{"name":"1 Department of Epidemiology, Biostatistics and Occupational Health, McGill University, Montreal, Quebec, Canada H3A 1A2 and 2McGill University and Genome Quebec Innovation Centre, Montreal, Quebec, Canada H3A 1A4, 3Institut de Recherches en Technologies et Sciences du Vivant, CEA, DSV, IRTSV, LBGE, CMBA and 4INSERM U1038, F-38054, Grenoble France, 5UJF-Grenoble 1, F-38041, France, 6D\u00e9partement Diff\u00e9renciation et Transformation Cellulaire, Institut Albert Bonniot, CRI INSERM\/UJF U823, Team 3 \u2018Polarity, Development and Cancer\u2019, Rond-point de la Chantourne, F-38706 La Tronche, France and 7Department of Human Genetics, McGill University, Montreal, Quebec, Canada H3A 1B1"},{"name":"1 Department of Epidemiology, Biostatistics and Occupational Health, McGill University, Montreal, Quebec, Canada H3A 1A2 and 2McGill University and Genome Quebec Innovation Centre, Montreal, Quebec, Canada H3A 1A4, 3Institut de Recherches en Technologies et Sciences du Vivant, CEA, DSV, IRTSV, LBGE, CMBA and 4INSERM U1038, F-38054, Grenoble France, 5UJF-Grenoble 1, F-38041, France, 6D\u00e9partement Diff\u00e9renciation et Transformation Cellulaire, Institut Albert Bonniot, CRI INSERM\/UJF U823, Team 3 \u2018Polarity, Development and Cancer\u2019, Rond-point de la Chantourne, F-38706 La Tronche, France and 7Department of Human Genetics, McGill University, Montreal, Quebec, Canada H3A 1B1"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Robert","family":"Nadon","sequence":"additional","affiliation":[{"name":"1 Department of Epidemiology, Biostatistics and Occupational Health, McGill University, Montreal, Quebec, Canada H3A 1A2 and 2McGill University and Genome Quebec Innovation Centre, Montreal, Quebec, Canada H3A 1A4, 3Institut de Recherches en Technologies et Sciences du Vivant, CEA, DSV, IRTSV, LBGE, CMBA and 4INSERM U1038, F-38054, Grenoble France, 5UJF-Grenoble 1, F-38041, France, 6D\u00e9partement Diff\u00e9renciation et Transformation Cellulaire, Institut Albert Bonniot, CRI INSERM\/UJF U823, Team 3 \u2018Polarity, Development and Cancer\u2019, Rond-point de la Chantourne, F-38706 La Tronche, France and 7Department of Human Genetics, McGill University, Montreal, Quebec, Canada H3A 1B1"},{"name":"1 Department of Epidemiology, Biostatistics and Occupational Health, McGill University, Montreal, Quebec, Canada H3A 1A2 and 2McGill University and Genome Quebec Innovation Centre, Montreal, Quebec, Canada H3A 1A4, 3Institut de Recherches en Technologies et Sciences du Vivant, CEA, DSV, IRTSV, LBGE, CMBA and 4INSERM U1038, F-38054, Grenoble France, 5UJF-Grenoble 1, F-38041, France, 6D\u00e9partement Diff\u00e9renciation et Transformation Cellulaire, Institut Albert Bonniot, CRI INSERM\/UJF U823, Team 3 \u2018Polarity, Development and Cancer\u2019, Rond-point de la Chantourne, F-38706 La Tronche, France and 7Department of Human Genetics, McGill University, Montreal, Quebec, Canada H3A 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