{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,3,13]],"date-time":"2024-03-13T22:44:54Z","timestamp":1710369894857},"reference-count":27,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2011,6,1]],"date-time":"2011-06-01T00:00:00Z","timestamp":1306886400000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2011,12]]},"DOI":"10.1186\/1471-2105-12-222","type":"journal-article","created":{"date-parts":[[2011,6,1]],"date-time":"2011-06-01T18:16:46Z","timestamp":1306952206000},"source":"Crossref","is-referenced-by-count":5,"title":["Kernel density weighted loess normalization improves the performance of detection within asymmetrical data"],"prefix":"10.1186","volume":"12","author":[{"given":"Wen-Ping","family":"Hsieh","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Tzu-Ming","family":"Chu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yu-Min","family":"Lin","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Russell D","family":"Wolfinger","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2011,6,1]]},"reference":[{"issue":"2","key":"4558_CR1","doi-asserted-by":"publisher","first-page":"185","DOI":"10.1093\/bioinformatics\/19.2.185","volume":"19","author":"BM Bolstad","year":"2003","unstructured":"Bolstad BM, Irizarry RA, Astrand M, Speed TP: A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 2003, 19(2):185\u2013193. 10.1093\/bioinformatics\/19.2.185","journal-title":"Bioinformatics"},{"issue":"1","key":"4558_CR2","doi-asserted-by":"publisher","first-page":"54","DOI":"10.2307\/2683591","volume":"35","author":"WS Cleveland","year":"1981","unstructured":"Cleveland WS: Lowess - a Program for Smoothing Scatterplots by Robust Locally Weighted Regression. American Statistician 1981, 35(1):54\u201354.","journal-title":"American Statistician"},{"issue":"1","key":"4558_CR3","first-page":"111","volume":"12","author":"S Dudoit","year":"2002","unstructured":"Dudoit S, Yang YH, Callow MJ, Speed TP: Statistical methods for identifying differentially expressed genes in replicated cDNA microarray experiments. Statistica Sinica 2002, 12(1):111\u2013139.","journal-title":"Statistica Sinica"},{"issue":"2","key":"4558_CR4","doi-asserted-by":"publisher","first-page":"R16","DOI":"10.1186\/gb-2005-6-2-r16","volume":"6","author":"SE Choe","year":"2005","unstructured":"Choe SE, Boutros M, Michelson AM, Church GM, Halfon MS: Preferred analysis methods for Affymetrix GeneChips revealed by a wholly defined control dataset. Genome Biol 2005, 6(2):R16. 10.1186\/gb-2005-6-2-r16","journal-title":"Genome Biol"},{"key":"4558_CR5","doi-asserted-by":"publisher","first-page":"520","DOI":"10.1186\/1471-2105-9-520","volume":"9","author":"CR Pelz","year":"2008","unstructured":"Pelz CR, Kulesz-Martin M, Bagby G, Sears RC: Global rank-invariant set normalization (GRSN) to reduce systematic distortions in microarray data. BMC Bioinformatics 2008, 9: 520. 10.1186\/1471-2105-9-520","journal-title":"BMC Bioinformatics"},{"issue":"12","key":"4558_CR6","doi-asserted-by":"publisher","first-page":"1476","DOI":"10.1093\/bioinformatics\/btp247","volume":"25","author":"Y Lu","year":"2009","unstructured":"Lu Y, Huggins P, Bar-Joseph Z: Cross species analysis of microarray expression data. Bioinformatics 2009, 25(12):1476\u20131483. 10.1093\/bioinformatics\/btp247","journal-title":"Bioinformatics"},{"issue":"10","key":"4558_CR7","doi-asserted-by":"publisher","first-page":"1235","DOI":"10.1093\/bioinformatics\/btm111","volume":"23","author":"A Oshlack","year":"2007","unstructured":"Oshlack A, Chabot AE, Smyth GK, Gilad Y: Using DNA microarrays to study gene expression in closely related species. Bioinformatics 2007, 23(10):1235\u20131242. 10.1093\/bioinformatics\/btm111","journal-title":"Bioinformatics"},{"issue":"5769","key":"4558_CR8","doi-asserted-by":"publisher","first-page":"1932","DOI":"10.1126\/science.1123726","volume":"311","author":"D Gresham","year":"2006","unstructured":"Gresham D, Ruderfer DM, Pratt SC, Schacherer J, Dunham MJ, Botstein D, Kruglyak L: Genome-wide detection of polymorphisms at nucleotide resolution with a single DNA microarray. Science 2006, 311(5769):1932\u20131936. 10.1126\/science.1123726","journal-title":"Science"},{"issue":"1","key":"4558_CR9","doi-asserted-by":"publisher","first-page":"R2","DOI":"10.1186\/gb-2007-8-1-r2","volume":"8","author":"A Oshlack","year":"2007","unstructured":"Oshlack A, Emslie D, Corcoran LM, Smyth GK: Normalization of boutique two-color microarrays with a high proportion of differentially expressed probes. Genome Biol 2007, 8(1):R2. 10.1186\/gb-2007-8-1-r2","journal-title":"Genome Biol"},{"issue":"8","key":"4558_CR10","first-page":"research0032.00","volume":"2","author":"C Li","year":"2001","unstructured":"Li C, Wong W: Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biology 2001, 2(8):research0032.0031\u20130032.0011.","journal-title":"Genome Biology"},{"issue":"1","key":"4558_CR11","doi-asserted-by":"publisher","first-page":"165","DOI":"10.1006\/abio.1997.2055","volume":"247","author":"V Savonet","year":"1997","unstructured":"Savonet V, Maenhaut C, Miot F, Pirson I: Pitfalls in the use of several ''housekeeping'' genes as standards for quantitation of mRNA: The example of thyroid cells. Analytical Biochemistry 1997, 247(1):165\u2013167. 10.1006\/abio.1997.2055","journal-title":"Analytical Biochemistry"},{"issue":"5","key":"4558_CR12","doi-asserted-by":"publisher","first-page":"739","DOI":"10.2144\/05385ST04","volume":"38","author":"AH Khimani","year":"2005","unstructured":"Khimani AH, Mhashilkar AM, Mikulskis A, O'Malley M, Liao J, Golenko EE, Mayer P, Chada S, Killian JB, Lott ST: Housekeeping genes in cancer: normalization of array data. Biotechniques 2005, 38(5):739. 10.2144\/05385ST04","journal-title":"Biotechniques"},{"issue":"2","key":"4558_CR13","doi-asserted-by":"publisher","first-page":"341","DOI":"10.1016\/S0003-2697(02)00045-3","volume":"307","author":"BK Steele","year":"2002","unstructured":"Steele BK, Meyers C, Ozbun MA: Variable expression of some \"housekeeping\" genes during human keratinocyte differentiation. Analytical Biochemistry 2002, 307(2):341\u2013347. 10.1016\/S0003-2697(02)00045-3","journal-title":"Analytical Biochemistry"},{"key":"4558_CR14","doi-asserted-by":"publisher","first-page":"243","DOI":"10.1186\/1471-2164-8-243","volume":"8","author":"S Waxman","year":"2007","unstructured":"Waxman S, Wurmbach E: De-regulation of common housekeeping genes in hepatocellular carcinoma. BMC Genomics 2007, 8: 243. 10.1186\/1471-2164-8-243","journal-title":"BMC Genomics"},{"key":"4558_CR15","doi-asserted-by":"crossref","unstructured":"Ni TT, Lemon WJ, Shyr Y, Zhong TP: use of normalization methods for analysis of microarrays containing a high degree of gene effects. BMC Bioinformatics 2008., 9(505):","DOI":"10.1186\/1471-2105-9-505"},{"issue":"8","key":"4558_CR16","doi-asserted-by":"publisher","first-page":"404","DOI":"10.1186\/gb-2006-7-8-404","volume":"7","author":"RA Irizarry","year":"2006","unstructured":"Irizarry RA, Cope LM, Wu ZJ: Feature-level exploration of a published Affymetrix GeneChip control dataset. Genome Biology 2006, 7(8):404. 10.1186\/gb-2006-7-8-404","journal-title":"Genome Biology"},{"key":"4558_CR17","doi-asserted-by":"crossref","unstructured":"Choe SE, Boutros M, Michelson AM, Church GM, Halfon MS: Preferred analysis methods for Affymetrix GeneChips revealed by a wholly defined control dataset. Genome Biology 2005., 6(2):","DOI":"10.1186\/gb-2005-6-2-r16"},{"key":"4558_CR18","doi-asserted-by":"crossref","unstructured":"Dabney AR, Storey JD: A reanalysis of a published Affymetrix GeneChip control dataset. Genome Biology 2006., 7(3):","DOI":"10.1186\/gb-2006-7-3-401"},{"key":"4558_CR19","doi-asserted-by":"publisher","first-page":"105","DOI":"10.1186\/1471-2164-8-105","volume":"8","author":"DP Gaile","year":"2007","unstructured":"Gaile DP, Miecznikowski JC: Putative null distributions corresponding to tests of differential expression in the Golden Spike dataset are intensity dependent. BMC Genomics 2007, 8: 105. 10.1186\/1471-2164-8-105","journal-title":"BMC Genomics"},{"key":"4558_CR20","doi-asserted-by":"publisher","first-page":"164","DOI":"10.1186\/1471-2105-9-164","volume":"9","author":"RD Pearson","year":"2008","unstructured":"Pearson RD: A comprehensive re-analysis of the Golden Spike data: towards a benchmark for differential expression methods. BMC Bioinformatics 2008, 9: 164. 10.1186\/1471-2105-9-164","journal-title":"BMC Bioinformatics"},{"key":"4558_CR21","volume-title":"BMC Bioinformatics","author":"RD Pearson","year":"2008","unstructured":"Pearson RD: A comprehensive re-analysis of the Golden Spike data: Towards a benchmark for differential expression methods. BMC Bioinformatics 2008., 9:"},{"key":"4558_CR22","doi-asserted-by":"crossref","unstructured":"Gadbury GL, Xiang QF, Yang L, Barnes S, Page GP, Allison DB: Evaluating Statistical Methods Using Plasmode Data Sets in the Age of Massive Public Databases: An Illustration Using False Discovery Rates. Plos Genetics 2008., 4(6):","DOI":"10.1371\/journal.pgen.1000098"},{"issue":"10","key":"4558_CR23","doi-asserted-by":"publisher","first-page":"2153","DOI":"10.1038\/sj.leu.2404877","volume":"21","author":"J Durig","year":"2007","unstructured":"Durig J, Bug S, Klein-Hitpass L, Boes T, Jons T, Martin-Subero JI, Harder L, Baudis M, Duhrsen U, Siebert R: Combined single nucleotide polymorphism-based genomic mapping and global gene expression profiling identifies novel chromosomal imbalances, mechanisms and candidate genes important in the pathogenesis of T-cell prolymphocytic leukemia with inv(14)(q11q32). Leukemia 2007, 21(10):2153\u20132163. 10.1038\/sj.leu.2404877","journal-title":"Leukemia"},{"issue":"2","key":"4558_CR24","doi-asserted-by":"publisher","first-page":"249","DOI":"10.1093\/biostatistics\/4.2.249","volume":"4","author":"RA Irizarry","year":"2003","unstructured":"Irizarry RA, Hobbs B, Collin F, Beazer-Barclay YD, Antonellis KJ, Scherf U, Speed TP: Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 2003, 4(2):249\u2013264. 10.1093\/biostatistics\/4.2.249","journal-title":"Biostatistics"},{"issue":"8","key":"4558_CR25","doi-asserted-by":"publisher","first-page":"943","DOI":"10.1093\/bioinformatics\/btl033","volume":"22","author":"S Hochreiter","year":"2006","unstructured":"Hochreiter S, Clevert DA, Obermayer K: A new summarization method for affymetrix probe level data. Bioinformatics 2006, 22(8):943\u2013949. 10.1093\/bioinformatics\/btl033","journal-title":"Bioinformatics"},{"key":"4558_CR26","volume-title":"Statistical Applications in Genetics and Molecular Biology","author":"R Opgen-Rhein","year":"2007","unstructured":"Opgen-Rhein R, Strimmer K: Accurate ranking of differentially expressed genes by a distribution-free shrinkage approach. Statistical Applications in Genetics and Molecular Biology 2007., 6:"},{"key":"4558_CR27","doi-asserted-by":"publisher","first-page":"538","DOI":"10.1186\/1471-2105-7-538","volume":"7","author":"MA Sartor","year":"2006","unstructured":"Sartor MA, Tomlinson CR, Wesselkamper SC, Sivaganesan S, Leikauf GD, Medvedovic M: Intensity-based hierarchical Bayes method improves testing for differentially expressed genes in microarray experiments. BMC Bioinformatics 2006, 7: 538. 10.1186\/1471-2105-7-538","journal-title":"BMC Bioinformatics"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-12-222.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/1471-2105-12-222\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-12-222.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,1,23]],"date-time":"2019-01-23T09:44:23Z","timestamp":1548236663000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-12-222"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2011,6,1]]},"references-count":27,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2011,12]]}},"alternative-id":["4558"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-12-222","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2011,6,1]]},"article-number":"222"}}