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Items: 1 to 20 of 23

1.

Removing batch effects in analysis of expression microarray data: an evaluation of six batch adjustment methods.

Chen C, Grennan K, Badner J, Zhang D, Gershon E, Jin L, Liu C.

PLoS One. 2011 Feb 28;6(2):e17238. doi: 10.1371/journal.pone.0017238.

2.

Analyzing schizophrenia by DNA microarrays.

Horváth S, Janka Z, Mirnics K.

Biol Psychiatry. 2011 Jan 15;69(2):157-62. doi: 10.1016/j.biopsych.2010.07.017. Review.

3.

Comparison of normalization methods for Illumina BeadChip HumanHT-12 v3.

Schmid R, Baum P, Ittrich C, Fundel-Clemens K, Huber W, Brors B, Eils R, Weith A, Mennerich D, Quast K.

BMC Genomics. 2010 Jun 2;11:349. doi: 10.1186/1471-2164-11-349.

4.

Whole-genome gene expression profiling of formalin-fixed, paraffin-embedded tissue samples.

April C, Klotzle B, Royce T, Wickham-Garcia E, Boyaniwsky T, Izzo J, Cox D, Jones W, Rubio R, Holton K, Matulonis U, Quackenbush J, Fan JB.

PLoS One. 2009 Dec 3;4(12):e8162. doi: 10.1371/journal.pone.0008162.

5.

Functional organization of the transcriptome in human brain.

Oldham MC, Konopka G, Iwamoto K, Langfelder P, Kato T, Horvath S, Geschwind DH.

Nat Neurosci. 2008 Nov;11(11):1271-82. doi: 10.1038/nn.2207. Epub 2008 Oct 12.

6.

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
7.

Optimization of RNA extraction from FFPE tissues for expression profiling in the DASL assay.

Abramovitz M, Ordanic-Kodani M, Wang Y, Li Z, Catzavelos C, Bouzyk M, Sledge GW Jr, Moreno CS, Leyland-Jones B.

Biotechniques. 2008 Mar;44(3):417-23. doi: 10.2144/000112703.

8.

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.

9.

Comparative analysis of microarray normalization procedures: effects on reverse engineering gene networks.

Lim WK, Wang K, Lefebvre C, Califano A.

Bioinformatics. 2007 Jul 1;23(13):i282-8.

PMID:
17646307
10.
11.

MRI neuroanatomy in young girls with autism: a preliminary study.

Bloss CS, Courchesne E.

J Am Acad Child Adolesc Psychiatry. 2007 Apr;46(4):515-23.

PMID:
17420687
12.

Genome-wide atlas of gene expression in the adult mouse brain.

Lein ES, Hawrylycz MJ, Ao N, Ayres M, Bensinger A, Bernard A, Boe AF, Boguski MS, Brockway KS, Byrnes EJ, Chen L, Chen L, Chen TM, Chin MC, Chong J, Crook BE, Czaplinska A, Dang CN, Datta S, Dee NR, Desaki AL, Desta T, Diep E, Dolbeare TA, Donelan MJ, Dong HW, Dougherty JG, Duncan BJ, Ebbert AJ, Eichele G, Estin LK, Faber C, Facer BA, Fields R, Fischer SR, Fliss TP, Frensley C, Gates SN, Glattfelder KJ, Halverson KR, Hart MR, Hohmann JG, Howell MP, Jeung DP, Johnson RA, Karr PT, Kawal R, Kidney JM, Knapik RH, Kuan CL, Lake JH, Laramee AR, Larsen KD, Lau C, Lemon TA, Liang AJ, Liu Y, Luong LT, Michaels J, Morgan JJ, Morgan RJ, Mortrud MT, Mosqueda NF, Ng LL, Ng R, Orta GJ, Overly CC, Pak TH, Parry SE, Pathak SD, Pearson OC, Puchalski RB, Riley ZL, Rockett HR, Rowland SA, Royall JJ, Ruiz MJ, Sarno NR, Schaffnit K, Shapovalova NV, Sivisay T, Slaughterbeck CR, Smith SC, Smith KA, Smith BI, Sodt AJ, Stewart NN, Stumpf KR, Sunkin SM, Sutram M, Tam A, Teemer CD, Thaller C, Thompson CL, Varnam LR, Visel A, Whitlock RM, Wohnoutka PE, Wolkey CK, Wong VY, Wood M, Yaylaoglu MB, Young RC, Youngstrom BL, Yuan XF, Zhang B, Zwingman TA, Jones AR.

Nature. 2007 Jan 11;445(7124):168-76. Epub 2006 Dec 6.

PMID:
17151600
13.
14.

Adjusting batch effects in microarray expression data using empirical Bayes methods.

Johnson WE, Li C, Rabinovic A.

Biostatistics. 2007 Jan;8(1):118-27. Epub 2006 Apr 21.

PMID:
16632515
15.

Inter-gene correlation on oligonucleotide arrays: how much does normalization matter?

Gold DL, Wang J, Coombes KR.

Am J Pharmacogenomics. 2005;5(4):271-9.

PMID:
16078863
16.

Constitutional aneuploidy in the normal human brain.

Rehen SK, Yung YC, McCreight MP, Kaushal D, Yang AH, Almeida BS, Kingsbury MA, Cabral KM, McConnell MJ, Anliker B, Fontanoz M, Chun J.

J Neurosci. 2005 Mar 2;25(9):2176-80.

17.

Bioconductor: open software development for computational biology and bioinformatics.

Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JY, Zhang J.

Genome Biol. 2004;5(10):R80. Epub 2004 Sep 15.

18.

A versatile assay for high-throughput gene expression profiling on universal array matrices.

Fan JB, Yeakley JM, Bibikova M, Chudin E, Wickham E, Chen J, Doucet D, Rigault P, Zhang B, Shen R, McBride C, Li HR, Fu XD, Oliphant A, Barker DL, Chee MS.

Genome Res. 2004 May;14(5):878-85.

19.

Progress in the use of microarray technology to study the neurobiology of disease.

Mirnics K, Pevsner J.

Nat Neurosci. 2004 May;7(5):434-9. Review.

PMID:
15114354
20.

Normality of oligonucleotide microarray data and implications for parametric statistical analyses.

Giles PJ, Kipling D.

Bioinformatics. 2003 Nov 22;19(17):2254-62.

PMID:
14630654

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