Microarray references:

• Selected Reviews
• Data Analysis Reviews
• Sensitivity
• Amplification
• Laser capture microdissection and transcript profiling

Selected Reviews

• Hughes TR, Shoemaker DD. DNA microarrays for expression profiling. Curr Opin Chem Biol. 2001 Feb;5(1):21-5. Review. PMID: 11166643 [PubMed - indexed for MEDLINE]
• Harkin DP. Uncovering functionally relevant signaling pathways using microarray-based expression profiling. Oncologist. 2000;5(6):501-7. Review. PMID: 11110602 [PubMed - indexed for MEDLINE]
• Claverie JM. Computational methods for the identification of differential and coordinated gene expression. Hum Mol Genet. 1999;8(10):1821-32. Review. PMID: 10469833 [PubMed - indexed for MEDLINE]
• Hoos A, Cordon-Cardo C. Tissue microarray profiling of cancer specimens and cell lines: opportunities and limitations. Lab Invest. 2001 Oct;81(10):1331-8. PMID: 11598146 [PubMed - in process]
• Greenberg SA. DNA microarray gene expression analysis technology and its application to neurological disorders. Neurology. 2001 Sep 11;57(5):755-61. PMID: 11575306 [PubMed - in process]
• Wu TD. Analysing gene expression data from DNA microarrays to identify candidate genes. J Pathol. 2001 Sep;195(1):53-65. PMID: 11568891 [PubMed - in process]
• Schulze A, Downward J. Navigating gene expression using microarrays--a technology review. Nat Cell Biol. 2001 Aug;3(8):E190-5. Review. PMID: 11483980 [PubMed - indexed for MEDLINE]
• Planet PJ, DeSalle R, Siddall M, Bael T, Sarkar IN, Stanley SE. Systematic analysis of DNA microarray data: ordering and interpreting patterns of gene expression. Genome Res. 2001 Jul;11(7):1149-55. Review. No abstract available. PMID: 11435396 [PubMed - indexed for MEDLINE]
• Devaux F, Marc P, Jacq C. Transcriptomes, transcription activators and microarrays. FEBS Lett. 2001 Jun 8;498(2-3):140-4. Review. PMID: 11412845 [PubMed - indexed for MEDLINE]
• Altman RB, Raychaudhuri S. Whole-genome expression analysis: challenges beyond clustering. Curr Opin Struct Biol. 2001 Jun;11(3):340-7. Review. PMID: 11406385 [PubMed - indexed for MEDLINE]
• Quackenbush J. Computational analysis of microarray data. Nat Rev Genet. 2001 Jun;2(6):418-27. Review. PMID: 11389458 [PubMed - indexed for MEDLINE]
• Blohm DH, Guiseppi-Elie A. New developments in microarray technology. Curr Opin Biotechnol. 2001 Feb;12(1):41-7. Review. PMID: 11167071 [PubMed - indexed for MEDLINE]
• Hegde P, Qi R, Abernathy K, Gay C, Dharap S, Gaspard R, Hughes JE, Snesrud E, Lee N, Quackenbush J. A concise guide to cDNA microarray analysis. Biotechniques. 2000 Sep;29(3):548-50, 552-4, 556 passim. Review. PMID: 10997270 [PubMed - indexed for MEDLINE]
• Nature Genetics Chipping Forecast, v21 supp 1999

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Data Analysis Reviews

• Hess KR, Zhang W, Baggerly KA, Stivers DN, Coombes KR, Zhang W. Microarrays: handling the deluge of data and extracting reliable information. Trends Biotechnol. 2001 Nov;19(11):463-8. PMID: 11602311 [PubMed - in process]
• Miles MF. Microarrays: lost in a storm of data? Nat Rev Neurosci. 2001 Jun;2(6):441-3. Review. PMID: 11389479 [PubMed - indexed for MEDLINE]
• Becker KG. The sharing of cDNA microarray data. Nat Rev Neurosci. 2001 Jun;2(6):438-40. Review. PMID: 11389478 [PubMed - indexed for MEDLINE]
• Geschwind DH. Sharing gene expression data: an array of options. Nat Rev Neurosci. 2001 Jun;2(6):435-8. Review. PMID: 11389477 [PubMed - indexed for MEDLINE]
• Quackenbush J. Computational analysis of microarray data. Nat Rev Genet. 2001 Jun;2(6):418-27. Review. PMID: 11389458 [PubMed - indexed for MEDLINE]
• Kerr MK, Churchill GA. Statistical design and the analysis of gene expression microarray data. Genet Res. 2001 Apr;77(2):123-8. Review. PMID: 11355567 [PubMed - indexed for MEDLINE]
• Raychaudhuri S, Sutphin PD, Chang JT, Altman RB. Basic microarray analysis: grouping and feature reduction. Trends Biotechnol. 2001 May;19(5):189-93. Review. PMID: 11301132 [PubMed - indexed for MEDLINE]

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Sensitivity

• Yue H, Eastman PS, Wang BB, Minor J, Doctolero MH, Nuttall RL, Stack R, Becker JW, Montgomery JR, Vainer M, Johnston R. An evaluation of the performance of cDNA microarrays for detecting changes in global mRNA expression. Nucleic Acids Res. 2001 Apr 15;29(8):E41-1. PMID: 11292855 [PubMed - indexed for MEDLINE]
• Pavlidis P, Noble WS. Analysis of strain and regional variation in gene expression in mouse brain. Genome Biol. 2001;2(10):RESEARCH0042. PMID: 11597334 [PubMed - in process]
• Taniguchi M, Miura K, Iwao H, Yamanaka S. Quantitative assessment of DNA microarrays--comparison with Northern blot analyses. Genomics. 2001 Jan 1;71(1):34-9. PMID: 11161795 [PubMed - indexed for MEDLINE]
• Kane MD, Jatkoe TA, Stumpf CR, Lu J, Thomas JD, Madore SJ. Assessment of the sensitivity and specificity of oligonucleotide (50mer) microarrays. Nucleic Acids Res. 2000 Nov 15;28(22):4552-7. PMID: 11071945 [PubMed - indexed for MEDLINE]
• Stears RL, Getts RC, Gullans SR. A novel, sensitive detection system for high-density microarrays using dendrimer technology. Physiol Genomics. 2000 Aug 9;3(2):93-9. PMID: 11015604 [PubMed - indexed for MEDLINE]
• Zammatteo N, Jeanmart L, Hamels S, Courtois S, Louette P, Hevesi L, Remacle J. Comparison between different strategies of covalent attachment of DNA to glass surfaces to build DNA microarrays. Anal Biochem. 2000 Apr 10;280(1):143-50. PMID: 10805532 [PubMed - indexed for MEDLINE]
• Bartosiewicz M, Trounstine M, Barker D, Johnston R, Buckpitt A. Development of a toxicological gene array and quantitative assessment of this technology. Arch Biochem Biophys. 2000 Apr 1;376(1):66-73. PMID: 10729191 [PubMed - indexed for MEDLINE]

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Amplification

• Dent GW, O'Dell DM, Eberwine JH. Gene expression profiling in the amygdala: An approach to examine the molecular substrates of mammalian behavior. Physiol Behav. 2001 Aug;73(5):841-7. PMID: 11566217 [PubMed - in process]
• Wang E, Miller LD, Ohnmacht GA, Liu ET, Marincola FM. High-fidelity mRNA amplification for gene profiling. Nat Biotechnol. 2000 Apr;18(4):457-9. PMID: 10748532 [PubMed - indexed for MEDLINE]
• Kacharmina JE, Crino PB, Eberwine J. Preparation of cDNA from single cells and subcellular regions. Methods Enzymol. 1999;303:3-18. PMID: 10349635 [PubMed - indexed for MEDLINE]
• Cheetham JE, Coleman PD, Chow N. Isolation of single immunohistochemically identified whole neuronal cell bodies from post-mortem human brain for simultaneous analysis of multiple gene expression. J Neurosci Methods. 1997 Nov 7;77(1):43-8. PMID: 9402555 [PubMed - indexed for MEDLINE]
• Craig JC, Eberwine JH, Calvin JA, Wlodarczyk B, Bennett GD, Finnell RH. Developmental expression of morphoregulatory genes in the mouse embryo: an analytical approach using a novel technology. Biochem Mol Med. 1997 Apr;60(2):81-91. PMID: 9169087 [PubMed - indexed for MEDLINE]
• Phillips J, Eberwine JH. Antisense RNA Amplification: A Linear Amplification Method for Analyzing the mRNA Population from Single Living Cells Methods. 1996 Dec;10(3):283-8. PMID: 8954839 [PubMed - as supplied by publisher]

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Laser capture microdissection and transcript profiling

• Alevizos I, Mahadevappa M, Zhang X, Ohyama H, Kohno Y, Posner M, Gallagher GT, Varvares M, Cohen D, Kim D, Kent R, Donoff RB, Todd R, Yung CM, Warrington JA, Wong DT. Oral cancer in vivo gene expression profiling assisted by laser capture microdissection and microarray analysis. Oncogene. 2001 Sep 27;20(43):6196-204. PMID: 11593428 [PubMed - in process]
• Mariani L, Beaudry C, McDonough WS, Hoelzinger DB, Kaczmarek E, Ponce F, Coons SW, Giese A, Seiler RW, Berens ME. Death-associated protein 3 (dap-3) is overexpressed in invasive glioblastoma cells in vivo and in glioma cell lines with induced motility phenotype in vitro. Clin Cancer Res. 2001 Aug;7(8):2480-9. PMID: 11489830 [PubMed - in process]
• Bahn S, Augood SJ, Ryan M, Standaert DG, Starkey M, Emson PC. Gene expression profiling in the post-mortem human brain - no cause for dismay. J Chem Neuroanat. 2001 Jul;22(1-2):79-94. PMID: 11470556 [PubMed - in process]
• Nagle RB. New molecular approaches to tissue analysis. J Histochem Cytochem. 2001 Aug;49(8):1063-4. PMID: 11457937 [PubMed - indexed for MEDLINE]
• Kitahara O, Furukawa Y, Tanaka T, Kihara C, Ono K, Yanagawa R, Nita ME, Takagi T, Nakamura Y, Tsunoda T. Alterations of gene expression during colorectal carcinogenesis revealed by cDNA microarrays after laser-capture microdissection of tumor tissues and normal epithelia. Cancer Res. 2001 May 1;61(9):3544-9. PMID: 11325815 [PubMed - indexed for MEDLINE]
• Ohyama H, Zhang X, Kohno Y, Alevizos I, Posner M, Wong DT, Todd R. Laser capture microdissection-generated target sample for high-density oligonucleotide array hybridization. Biotechniques. 2000 Sep;29(3):530-6. PMID: 10997267 [PubMed - indexed for MEDLINE]
• Sgroi DC, Teng S, Robinson G, LeVangie R, Hudson JR Jr, Elkahloun AG. In vivo gene expression profile analysis of human breast cancer progression. Cancer Res. 1999 Nov 15;59(22):5656-61. PMID: 10582678 [PubMed - indexed for MEDLINE]

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Last Updated on 9/3/03