Baird AE: The blood option: transcriptional profiling in clinical trials. Pharmacogenomics. 2006, 7: 141-144. 10.2217/14622416.7.2.141.
Article
PubMed
Google Scholar
Burczynski ME, Dorner AJ: Transcriptional profiling of peripheral blood cells in clinical pharmacogenomic studies. Pharmacogenomics. 2006, 7: 187-202. 10.2217/14622416.7.2.187.
Article
PubMed
CAS
Google Scholar
Mohr S, Liew CC: The peripheral-blood transcriptome: new insights into disease and risk assessment. Trends Mol Med. 2007, 13: 422-432. 10.1016/j.molmed.2007.08.003.
Article
PubMed
CAS
Google Scholar
Liew CC, Ma J, Tang HC, Zheng R, Dempsey AA: The peripheral blood transcriptome dynamically reflects system wide biology: a potential diagnostic tool. J Lab Clin Med. 2006, 147: 126-132. 10.1016/j.lab.2005.10.005.
Article
PubMed
CAS
Google Scholar
Chia SY, Milas M, Reddy SK, Siperstein A, Skugor M, Brainard J, Gupta MK: Thyroid-stimulating hormone receptor messenger ribonucleic acid measurement in blood as a marker for circulating thyroid cancer cells and its role in the preoperative diagnosis of thyroid cancer. J Clin Endocrinol Metab. 2007, 92: 468-475.
Article
PubMed
CAS
Google Scholar
Hilpert J, Beekman JM, Schwenke S, Kowal K, Bauer D, Lampe J, Sandbrink R, Heubach JF, Stürzebecher S, Reischl J: Biological response genes after single dose administration of interferon beta-1b to healthy male volunteers. J Neuroimmunol. 2008, 199: 115-125. 10.1016/j.jneuroim.2008.04.036.
Article
PubMed
CAS
Google Scholar
Miyamoto M, Yanai M, Ookubo S, Awasaki N, Takami K, Imai R: Detection of cell-free, liver-specific mRNAs in peripheral blood from rats with hepatotoxicity: a potential toxicological biomarker for safety evaluation. Toxicol Sci. 2008, 106: 538-545. 10.1093/toxsci/kfn188.
Article
PubMed
CAS
Google Scholar
Medvedovic M, Halbleib D, Miller ML, LaDow K, Sartor MA, Tomlinson CR: Gene expression profiling of blood to predict the onset of leukemia. Blood Cells Mol Dis. 2009, 42: 64-70. 10.1016/j.bcmd.2008.09.001.
Article
PubMed
CAS
PubMed Central
Google Scholar
Fuscoe JC, Tong W, Shi L: QA/QC issues to aid regulatory acceptance of microarray gene expression data. Environ Mol Mutagen. 2007, 48: 349-353. 10.1002/em.20293.
Article
PubMed
CAS
Google Scholar
Gibson G: Microarrays in ecology and evolution: a preview. Mol Ecol. 2002, 11: 17-24. 10.1046/j.0962-1083.2001.01425.x.
Article
PubMed
CAS
Google Scholar
Strauss E: Arrays of hope. Cell. 2006, 127: 657-659. 10.1016/j.cell.2006.11.005.
Article
PubMed
CAS
Google Scholar
Chen H, Li J: Nanotechnology: moving from microarrays toward nanoarrays. Methods Mol Biol. 2007, 381: 411-436.
PubMed
CAS
Google Scholar
Honore P, Granjeaud S, Tagett R, Deraco S, Beaudoing E, Rougemont J, Debono S, Hingamp P: MicroArray Facility: a laboratory information management system with extended support for Nylon based technologies. BMC Genomics. 2006, 7: 240-10.1186/1471-2164-7-240.
Article
PubMed
PubMed Central
Google Scholar
Affymetrix White Paper: A Comparative Assessment of Performance Between HT and Cartridge IVT Expression Arrays. 2007, Santa Clara, 1-22.http://www.affymetrix.com/esearch/search.jsp?Ntt=Affymetrix%3A+A+Comparative+Assessment+of+Performance+Between+HT+and+Cartridge+IVT++Expression+Arrays.+Santa+Clara%3A%3B+2007%3A1%E2%80%9322.&basic=1,
Google Scholar
Allaire NE, Rieder LE, Bienkowska J, Carulli JP: Experimental comparison and cross-validation of Affymetrix HT plate and cartridge array gene expression platforms. Genomics. 2008, 92: 359-365. 10.1016/j.ygeno.2008.06.010.
Article
PubMed
CAS
Google Scholar
Van Gelder RN, von Zastrow ME, Yool A, Dement WC, Barchas JD, Eberwine JH: Amplified RNA synthesized from limited quantities of heterogeneous cDNA. Proc Natl Acad Sci U S A. 1990, 87: 1663-1667. 10.1073/pnas.87.5.1663.
Article
PubMed
CAS
PubMed Central
Google Scholar
Thach DC, Agan BK, Olsen C, Diao J, Lin B, Gomez J, Jesse M, Jenkins M, Rowley R, Hanson E, Tibbetts C, Stenger DA, Walter E, Epidemic Outbreak Surveillance (EOS): Surveillance of transcriptomes in basic military trainees with normal, febrile respiratory illness, and convalescent phenotypes. Genes Immun. 2005, 6: 588-595. 10.1038/sj.gene.6364244.
Article
PubMed
CAS
Google Scholar
Affymetrix: Globin Reduction Protocol: A Method for Processing Whole Blood RNA Samples for Improved Array Results. 2004, Santa Clara
Google Scholar
Affymetrix: GeneChip Globin Reduction Kit Handbook. 2004, Santa Clara
Google Scholar
Ambion: GLOBINclear Kit for Reduction of Globin. 2007, Austin, 22-
Google Scholar
Liu J, Walter E, Stenger D, Thach D: Effects of globin mRNA reduction methods on gene expression profiles from whole blood. J Mol Diagn. 2006, 8: 551-558. 10.2353/jmoldx.2006.060021.
Article
PubMed
CAS
PubMed Central
Google Scholar
Eklund AC, Turner LR, Chen P, Jensen RV, deFeo G, Kopf-Sill AR, Szallasi Z: Replacing cRNA targets with cDNA reduces microarray cross-hybridization. Nat Biotechnol. 2006, 24: 1071-1073. 10.1038/nbt0906-1071.
Article
PubMed
CAS
Google Scholar
Barker CS, Griffin C, Dolganov GM, Hanspers K, Yang JY, Erle DJ: Increased DNA microarray hybridization specificity using sscDNA targets. BMC Genomics. 2005, 6: 57-10.1186/1471-2164-6-57.
Article
PubMed
PubMed Central
Google Scholar
Shi L, Campbell G, Jones WD, Shi L, Campbell G, Jones WD, Campagne F, Wen Z, Walker SJ, Su Z, Chu TM, Goodsaid FM, Pusztai L, Shaughnessy JD, Oberthuer A, Thomas RS, Paules RS, Fielden M, Barlogie B, Chen W, Du P, Fischer M, Furlanello C, Gallas BD, Ge X, Megherbi DB, Symmans WF, Wang MD, Zhang J, Bitter H, Brors B, Bushel PR, Bylesjo M, Chen M, Cheng J, Cheng J, Chou J, Davison TS, Delorenzi M, Deng Y, Devanarayan V, Dix DJ, Dopazo J, Dorff KC, Elloumi F, Fan J, Fan S, Fan X, Fang H, Gonzaludo N, Hess KR, Hong H, Huan J, Irizarry RA, Judson R, Juraeva D, Lababidi S, Lambert CG, Li L, Li Y, Li Z, Lin SM, Liu G, Lobenhofer EK, Luo J, Luo W, McCall MN, Nikolsky Y, Pennello GA, Perkins RG, Philip R, Popovici V, Price ND, Qian F, Scherer A, Shi T, Shi W, Sung J, Thierry-Mieg D, Thierry-Mieg J, Thodima V, Trygg J, Vishnuvajjala L, Wang SJ, Wu J, Wu Y, Xie Q, Yousef WA, Zhang L, Zhang X, Zhong S, Zhou Y, Zhu S, Arasappan D, Bao W, Lucas AB, Berthold F, Brennan RJ, Buness A, Catalano JG, Chang C, Chen R, Cheng Y, Cui J, Czika W, Demichelis F, Deng X, Dosymbekov D, Eils R, Feng Y, Fostel J, Fulmer-Smentek S, Fuscoe JC, Gatto L, Ge W, Goldstein DR, Guo L, Halbert DN, Han J, Harris SC, Hatzis C, Herman D, Huang J, Jensen RV, Jiang R, Johnson CD, Jurman G, Kahlert Y, Khuder SA, Kohl M, Li J, Li L, Li M, Li QZ, Li S, Li Z, Liu J, Liu Y, Liu Z, Meng L, Madera M, Martinez-Murillo F, Medina I, Meehan J, Miclaus K, Moffitt RA, Montaner D, Mukherjee P, Mulligan GJ, Neville P, Nikolskaya T, Ning B, Page GP, Parker J, Parry RM, Peng X, Peterson RL, Phan JH, Quanz B, Ren Y, Riccadonna S, Roter AH, Samuelson FW, Schumacher MM, Shambaugh JD, Shi Q, Shippy R, Si S, Smalter A, Sotiriou C, Soukup M, Staedtler F, Steiner G, Stokes TH, Sun Q, Tan PY, Tang R, Tezak Z, Thorn B, Tsyganova M, Turpaz Y, Vega SC, Visintainer R, von Frese J, Wang C, Wang E, Wang J, Wang W, Westermann F, Willey JC, Woods M, Wu S, Xiao N, Xu J, Xu L, Yang L, Zeng X, Zhang J, Zhang L, Zhang M, Zhao C, Puri RK, Scherf U, Tong W, Wolfinger RD, MAQC Consortium: The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models. Nat Biotechnol. 2010, 28: 827-838. 10.1038/nbt.1665.
Article
PubMed
CAS
Google Scholar
Gentleman R: Bioinformatics and computational biology solutions using R and Bioconductor. 2005, Springer Science + Business Media
Book
Google Scholar
Smyth GK: Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol. 2004, 3: Article3-
PubMed
Google Scholar
Wilson CL, Miller CJ: Simpleaffy: a BioConductor package for Affymetrix Quality Control and data analysis. Bioinformatics. 2005, 21: 3683-3685. 10.1093/bioinformatics/bti605.
Article
PubMed
CAS
Google Scholar
Vandenbroeck K, Urcelay E, Comabella M: IFN-beta pharmacogenomics in multiple sclerosis. Pharmacogenomics. 2010, 11: 1137-1148. 10.2217/pgs.10.108.
Article
PubMed
CAS
Google Scholar
Hu X, Miller L, Richman S, Hitchman S, Glick G, Liu S, Zhu Y, Crossman M, Nestorov I, Gronke RS, Baker DP, Rogge M, Subramanyam M, Davar G: A novel PEGylated interferon beta-1a for multiple sclerosis: safety, pharmacology, and biology. J Clin Pharmacol. 2011, Epub ahead of print
Google Scholar
Bains W: Selection of oligonucleotide probes and experimental conditions for multiplex hybridization experiments. Genet Anal Tech Appl. 1994, 11: 49-62. 10.1016/1050-3862(94)90051-5.
Article
PubMed
CAS
Google Scholar
Honore' B, Madsen P, Leffers H: The tetramethylammonium chloride method for screening of cDNA libraries using highly degenerate oligonucleotides obtained by backtranslation of amino-acid sequences. J Biochem Biophys Methods. 1993, 27: 39-48. 10.1016/0165-022X(93)90066-W.
Article
Google Scholar
Legault-D’mare J, Desseaux B, Heyman T, S’eror S, Ress GP: Studies on hybrid molecules of nucleic acids I. DNA-DNA hybrids on nitrocellulose filters. Biochem Biophys Research Comm. 1967, 28: 550-557. 10.1016/0006-291X(67)90349-X.
Article
Google Scholar
The IFNB, Multiple Sclerosis Study Group: Interferon beta-1a is effective in relapsing-remitting multiple sclerosis. I. Clinical results of a multicenter, randomized, double-blind, placebo-controlled trial. Neurology. 1993, 43: 655-661.
Article
Google Scholar
Jacobs LD, Cookfair DL, Rudick RA, Herndon RM, Richert JR, Salazar AM, Fischer JS, Goodkin DE, Granger CV, Simon JH, Alam JJ, Bartoszak DM, Bourdette DN, Braiman J, Brownscheidle CM, Coats ME, Cohan SL, Dougherty DS, Kinkel RP, Mass MK, Munschauer FE, Priore RL, Pullicino PM, Scherokman BJ, Whitham RH, et al: Intramuscular interferon beta-1a for disease progression in relapsing multiple sclerosis. The Multiple Sclerosis Collaborative Research Group (MSCRG). Ann Neurol. 1996, 39: 285-294. 10.1002/ana.410390304.
Article
PubMed
CAS
Google Scholar
PRISMS (Prevention of Relapses and Disability by Interferon Beta-1a Subcutaneously in Multiple Sclerosis) Study Group: Randomised double-blind placebo-controlled study of interferon beta-1a in relapsing/remitting multiple sclerosis. Lancet. 1998, 352: 1498-1504. 10.1016/S0140-6736(98)03334-0.
Article
Google Scholar
Runkel L, deDios C, Karpusas M, Betzenhauser M, Muldowney C, Zafari M, Benjamin CD, Miller S, Hochman PS, Whitty A: Systematic mutational mapping of sites on human interferon-beta-1a that are important for receptor binding and functional activity. Biochemistry. 2000, 39: 2538-2551. 10.1021/bi991631c.
Article
PubMed
CAS
Google Scholar
Baker DP, Pepinsky RB, Brickelmaier M, Gronke RS, Hu X, Olivier K, Lerner M, Miller L, Crossman M, Nestorov I, Subramanyam M, Hitchman S, Glick G, Richman S, Liu S, Zhu Y, Panzara MA, Davar G: PEGylated interferon beta-1a: meeting an unmet medical need in the treatment of relapsing multiple sclerosis. J Interferon Cytokine Res. 2010, 30: 777-785. 10.1089/jir.2010.0092.
Article
PubMed
CAS
Google Scholar