Microarray Analysis of Mouse Transcriptome

This was performed as in our previous publications (Pendergrass et al., 2012 (link)). cDNA samples were amplified and labeled using the Agilent Low Input Linear Amplification kit (Agilent Technologies, Santa Clara, CA) and were hybridized against Universal Mouse Reference (UMR) (Strategene, La Jolla, CA) to Agilent Whole Mouse Genome arrays (G4122F) (Agilent Technologies, Santa Clara, CA) in a common reference based design. Microarrays were hybridized and washed in accordance with manufacturer’s protocols and scanned using a dual laser GenePix 4000B scanner (Axon Instruments, Foster City, CA). The pixel intensities of the acquired images were then quantified using GenePix Pro 5.1 software (Axon Instruments, Foster City, CA).

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Long K.B., Li Z., Burgwin C.M., Choe S.G., Martyanov V., Sassi-Gaha S., Earl J., Eutsey R., Ahmed A., Ehrlich G.D., Artlett C.M., Whitfield M.L, & Blankenhorn E.P. (2014). The Tsk2/+ mouse fibrotic phenotype is due to a gain-of-function mutation in the PIIINP segment of the Col3a1 gene. The Journal of investigative dermatology, 135(3), 718-727.

Publication 2014

Agilent Low Input Linear Amplification kit Agilent Whole Mouse Genome arrays (G4122F) GenePix 4000B scanner GenePix Pro 5.1 software

Axon Cdna Genome Microarrays Mouse

Corresponding Organization :

Other organizations : Drexel University, Dartmouth College, Genomic Health (United States)

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Variable analysis

independent variables

Amplification and labeling of cDNA samples using the Agilent Low Input Linear Amplification kit
Hybridization of cDNA samples against the Universal Mouse Reference (UMR)

dependent variables

Pixel intensities of the acquired microarray images quantified using GenePix Pro 5.1 software

control variables

Hybridization and washing of microarrays performed in accordance with manufacturer's protocols

controls

Universal Mouse Reference (UMR) used as a common reference

Annotations

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