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Items: 1 to 20 of 89

1.

An Exponential-Gamma Convolution Model for Background Correction of Illumina BeadArray Data.

Chen M, Xie Y, Story M.

Commun Stat Theory Methods. 2011 Sep 1;40(17):3055-3069.

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3.

Statistical methods of background correction for Illumina BeadArray data.

Xie Y, Wang X, Story M.

Bioinformatics. 2009 Mar 15;25(6):751-7. doi: 10.1093/bioinformatics/btp040. Epub 2009 Feb 4.

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6.

Gene filtering in the analysis of Illumina microarray experiments.

Forcheh AC, Verbeke G, Kasim A, Lin D, Shkedy Z, Talloen W, Göhlmann HW, Clement L.

Stat Appl Genet Mol Biol. 2012 Jan 6;11(2). pii: /j/sagmb.2012.11.issue-2/1544-6115.1710/1544-6115.1710.xml. doi: 10.2202/1544-6115.1710.

PMID:
22499694
7.

Identification and correction of previously unreported spatial phenomena using raw Illumina BeadArray data.

Smith ML, Dunning MJ, Tavaré S, Lynch AG.

BMC Bioinformatics. 2010 Apr 27;11:208. doi: 10.1186/1471-2105-11-208.

8.

The cost of reducing starting RNA quantity for Illumina BeadArrays: a bead-level dilution experiment.

Lynch AG, Hadfield J, Dunning MJ, Osborne M, Thorne NP, Tavaré S.

BMC Genomics. 2010 Oct 6;11:540. doi: 10.1186/1471-2164-11-540.

9.

Low-level processing of Illumina Infinium DNA Methylation BeadArrays.

Triche TJ Jr, Weisenberger DJ, Van Den Berg D, Laird PW, Siegmund KD.

Nucleic Acids Res. 2013 Apr;41(7):e90. doi: 10.1093/nar/gkt090. Epub 2013 Mar 9.

10.

A Distribution-Free Convolution Model for background correction of oligonucleotide microarray data.

Chen Z, McGee M, Liu Q, Kong M, Deng Y, Scheuermann RH.

BMC Genomics. 2009 Jul 7;10 Suppl 1:S19. doi: 10.1186/1471-2164-10-S1-S19.

11.

Microarray background correction: maximum likelihood estimation for the normal-exponential convolution.

Silver JD, Ritchie ME, Smyth GK.

Biostatistics. 2009 Apr;10(2):352-63. doi: 10.1093/biostatistics/kxn042. Epub 2008 Dec 8.

12.

Parameter estimation for the exponential-normal convolution model for background correction of affymetrix GeneChip data.

McGee M, Chen Z.

Stat Appl Genet Mol Biol. 2006;5:Article24. Epub 2006 Sep 23.

PMID:
17049035
13.

lumi: a pipeline for processing Illumina microarray.

Du P, Kibbe WA, Lin SM.

Bioinformatics. 2008 Jul 1;24(13):1547-8. doi: 10.1093/bioinformatics/btn224. Epub 2008 May 8.

PMID:
18467348
14.

BeadArray expression analysis using bioconductor.

Ritchie ME, Dunning MJ, Smith ML, Shi W, Lynch AG.

PLoS Comput Biol. 2011 Dec;7(12):e1002276. doi: 10.1371/journal.pcbi.1002276. Epub 2011 Dec 1.

15.

Model-based variance-stabilizing transformation for Illumina microarray data.

Lin SM, Du P, Huber W, Kibbe WA.

Nucleic Acids Res. 2008 Feb;36(2):e11. doi: 10.1093/nar/gkm1075. Epub 2008 Jan 4.

16.

A re-annotation pipeline for Illumina BeadArrays: improving the interpretation of gene expression data.

Barbosa-Morais NL, Dunning MJ, Samarajiwa SA, Darot JF, Ritchie ME, Lynch AG, Tavaré S.

Nucleic Acids Res. 2010 Jan;38(3):e17. doi: 10.1093/nar/gkp942. Epub 2009 Nov 18.

17.

A statistical framework for Illumina DNA methylation arrays.

Kuan PF, Wang S, Zhou X, Chu H.

Bioinformatics. 2010 Nov 15;26(22):2849-55. doi: 10.1093/bioinformatics/btq553. Epub 2010 Sep 29.

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19.

BASH: a tool for managing BeadArray spatial artefacts.

Cairns JM, Dunning MJ, Ritchie ME, Russell R, Lynch AG.

Bioinformatics. 2008 Dec 15;24(24):2921-2. doi: 10.1093/bioinformatics/btn557. Epub 2008 Oct 25.

20.

Detection call algorithms for high-throughput gene expression microarray data.

Archer KJ, Reese SE.

Brief Bioinform. 2010 Mar;11(2):244-52. doi: 10.1093/bib/bbp055. Epub 2009 Nov 25. Review.

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