Custom Array Protocols

Spot arrays can be 16 pin (4x4), 8 pin (2x4) or a single pin arrangement. Determined in consultation with researchers and the array team

• Printing on Corning ULTRAGaps (25 mm x 75 mm) using appropriate spotting buffer.
• Oligo concentration optimized at 0.5 µg/µl.
• PCR products (cDNAs) optimized at concentration of 0.15 µg/µl.
• Read Custom Microarray Policy information

• Processed according to slide chemistry
  Corning Ultragaps: held in a desiccator for 24-48 hours after printing (X-linked (600 mJ for oligos, 225 mJ for cDNA/PCR products)
  Corning Epoxide: held in humidified chamber ~ 16 hr
  GE Healthcare Codelink: held in humidified chamber ~ 16 hr
• Quality control measures performed by CGRB Core Labs

• Bioanalyzer quality control run recommended before proceeding

• CGRB Core Lab standard protocol: NimbleGen protocols (Cy3 and Cy5) for labeling and hybridization
• Note: CGRB Core Lab will also perform hybridizations using labeled material supplied by researcher using NimbleGen arrays.

• Axon GenePix
• Training session scheduled prior to use with Caprice Rosato
• Scanner policy
• Instructions
• Calendar Scheduling
• Contact Caprice if you wish to use alternative dyes

• GenePix Pro software used for data extraction of the .tif files from the Axon GenePix scanner

• GeneSifter is available to analyze data extracted from NimbleGen and Affymetrix arrays.  Contact Caprice Rosato or Anne-Marie Girard for instructions on how to access this software.

• Please be prepared to burn CD's or back-up your data immediately following scanning. Scripts to delete files older than 3 months will run monthly. Scans are 8-9.5 MB apiece

• Current price schedule