TITLE

Subtraction-coupled Custom Microarray Analysis for Gene Discovery and Gene Expression Studies in the CNS

AUTHOR(S)
Dougherty, Joseph D.; Geschwind, Daniel H.
PUB. DATE
March 2002
SOURCE
Chemical Senses;Mar2002, Vol. 27 Issue 3, p293
SOURCE TYPE
Academic Journal
DOC. TYPE
Article
ABSTRACT
The revolution in our knowledge about the genomes of organisms gives rise to the question, what do we do with this information? The development of techniques allowing high throughput analysis of RNA and protein expression, such as cDNA microarrays, provide for genome-wide analysis of gene expression. These analyses will help bridge the gap between systems and molecular neuroscience. This review discusses the advantages of using a subtractive hybridization technique, such as a representational difference analysis, to generate a custom cDNA microarray enriched for genes relevant to investigating complex, heterogeneous tissues such as those involved in the chemical senses. Real and hypothetical examples of these experiments are discussed. Benefits of this approach over traditional microarray techniques include having a more relevant clone set, the potential for gene discovery and the creation of a new tool to investigate similar systems. Potential pitfalls may include PCR artifacts and the need for sequencing. However, these disadvantages can be overcome so that the coupling of subtraction techniques to microarray screening can be a fruitful approach to a variety of experimental systems.
ACCESSION #
45305509

 

Related Articles

  • A method for detecting and correcting feature misidentification on expression microarrays. I-Ping Tu; Schaner, Marci; Diehn, Maximilian; Sikic, Branimir I.; Brown, Patrick O.; Botstein, David; Fero, Michael J. // BMC Genomics;2004, Vol. 5, p64 

    Background: Much of the microarray data published at Stanford is based on mouse and human arrays produced under controlled and monitored conditions at the Brown and Botstein laboratories and at the Stanford Functional Genomics Facility (SFGF). Nevertheless, as large datasets based on the...

  • Exploiting orthologue diversity for systematic detection of gain-of-function phenotypes. Martelli, Maria Luisa; Isella, Claudio; Mira, Alessia; Fu, Limin; Cantarella, Daniela; Medico, Enzo // BMC Genomics;2008, Vol. 9, Special section p1 

    Background: Systematic search for genes whose gain-of-function by exogenous expression confers an advantage in cell-based selective screenings is a powerful method for unbiased functional exploration of the genome, and has the potential to disclose new targets for cancer therapy. A major limit...

  • The effect of column purification on cDNA indirect labelling for microarrays. Molas, M. Lia; Kiss, John Z. // Plant Methods;2007, Vol. 3, p9 

    Background: The success of the microarray reproducibility is dependent upon the performance of standardized procedures. Since the introduction of microarray technology for the analysis of global gene expression, reproducibility of results among different laboratories has been a major problem....

  • Identification and analysis of differentially expressed genes in differentiating xylem of Chinese fir (Cunninghamia lanceolata) by suppression subtractive hybridization. Guifeng Wang; Yan Gao; Liwei Yang; Jisen Shi // Genome;Dec2007, Vol. 50 Issue 12, p1141 

    Wood is an important raw material for global industries with rapidly increasing demand. To isolate the genes differentially expressed during xylogenesis of Chinese fir (Cunninghamia lanceolata (Lamb.) Hook.), we used a novel system. Forward and reverse subtracted cDNA libraries were constructed...

  • Behavioural genetics: Oh bee-have! Kitchener, Victoria // Nature Reviews Genetics;Dec2003, Vol. 4 Issue 12, p932 

    Discusses research being done on the genetic aspects of behavior in eusocial honey bees Apis mellifera. Reference to study by Whitfield and colleagues, published in the journal "Science"; Variation in the expression of microarray complementary DNA; Correlation between gene expression and behavior.

  • Cross-species hybridisation of pig RNA to human nylon microarrays. Moody, D. E.; Zou, Z.; McIntyre, L. // BMC Genomics;2002, Vol. 3, p27 

    Background: The objective of this research was to investigate the reproducibility of cross-species microarray hybridisation. Comparisons between same- and cross-species hybridisations were also made. Nine hybridisations between a single pig skeletal muscle RNA sample and three human cDNA nylon...

  • Outliers involving the Poly(A) effect among highly-expressed genes in microarrays. Pan, Shujia J.; Rigney, David R.; Ivy, John L. // BMC Genomics;2002, Vol. 3, p35 

    Background: The Poly(A) effect is a cross-hybridization artifact in which poly(T)-containing molecules, which are produced by the reverse transcription of a poly(A)+ RNA mixture, bind promiscuously to the poly(A) stretches of the DNA in microarray spots. It is customary to attempt to block such...

  • Transcript profiling in Vitis riparia during chilling requirement fulfillment reveals coordination of gene expression patterns with optimized bud break. Mathiason, Kathy; Dong He; Grimplet, Jérôme; Venkateswari, J.; Galbraith, David W.; Or, Etti; Fennell, Anne // Functional & Integrative Genomics;Feb2009, Vol. 9 Issue 1, p81 

    Endodormant grapevine buds require a period of chilling before they break and begin to grow. Custom Vitis bud cDNA microarrays (9,216 features) were used to examine gene expression patterns in overwintering Vitis riparia buds during 2,000 h of 4°C chilling. Three-node cuttings collected...

  • cDNA microarray analysis of genes associated with ERBB2 (HER2/neu) overexpression in human mammary luminal epithelial cells. Mackay, Alan; Jones, Chris; Dexter, Tim; Silva, Ricardo L A; Bulmer, Karen; Jones, Allison; Simpson, Peter; Harris, Robert A; Jat, Parmjit S; Neville, A Munro; Reis, Luiz F L; Lakhani, Sunil R; O'Hare, Michael J // Oncogene;5/1/2003, Vol. 22 Issue 17, p2680 

    To investigate changes in gene expression associated with ERBB2, expression profiling of immortalized human mammary luminal epithelial cells and variants expressing a moderate and high level of ERBB2 has been carried out using cDNA microarrays corresponding to approximately 6000 unique...

Share

Read the Article

Courtesy of THE LIBRARY OF VIRGINIA

Sorry, but this item is not currently available from your library.

Try another library?
Sign out of this library

Other Topics