6 protocols
AccessionType
hybridization
Hybridization was performed using mouse genome CGH microarray244K from Agilent Technologies (Santa Clara, CA) according to the manufacturer's protocol. Slides were hybridized for 48 hours.
image_acquisition
Arrays were scanned with an Agilent microarray scanner. Raw data was then extracted using Agilent Feature Extraction. All following data analysis was performed in R using Bioconductor free packages (http://www.bioconductor.org).
grow
Mice were housed in standard clean conditions and were aged until moribund
specified_biomaterial_action
Thymocytes and tails were isolated from moribund mutant animals, red blood cells lysed (thymocytes), pelleted and stored at -80 degrees prior to gDNA extraction.
labeling
DNAs were labeled with Cy3 orCy5 fluorescent accordingto BioPrime array CGH genomic labeling protocol (Invitrogen, Carlsbad, CA) and cleaned using purelink pcr purification kit (invitrogen).
nucleic_acid_extraction
Genomic DNA from diseased thymocytes and tail matched samples was extracted using standard methods.