title: Sanger Homo sapiens 4K CGH (CGH_SANGER_4K_1)
status: Public on Mar 09 2007
contact.city: Leuven
contact.first: Rekin's
contact.last: Janky
contact.email: Nucleomics.Bioinformatics@vib.be
contact.address: Herestraat 49 Box 816
contact.department: Nucleomics Core
contact.country: Belgium
contact.institute: VIB
organism: Homo sapiens
description: The array contains 4066 distinct BAC and PAC sequences. The bacs were printed in 2 replicates. 3529 BACS are from the Sanger institute. 479 BACS are from the Human 32K BAC rearray of CHORI BACPAC resources. A third group of 58 BACs are from the Center for Human Genetics, University Hospital Gasthuisberg, Leuven, Belgium.  The bacs were amplified by DOP - PCR. In total the array design contains 8736 features printed in a layout of 12 meta rows, 4 meta columns, 13 rows per block and 14 columns per block.
manufacture_protocol: MicroGrid Printing Protocol
  Equipment:
  1. Microgrid (Genomics Solutions, UK).
  2. 384 microtiter plates (X7022, Genetix)
  3. 48 MicroSpot quill pins - 10K (cat# BR001489, Genomics Solutions, UK)
  4. Codelink slides (cat# 30001100, GE Healthcare).
  Printing 1 array of 12x4 blocks on 1 microscope slide:
  1. Dissolve PCR products in 250mM Phosphate buffer, 0.00025% sarcosyl at concentrations ranging between 300 and 600 ng/ul and array in 384 microtiter plates.
  2. Set spotter settings for 1 array of 12x4 blocks printed with 48 pins: column pitch = 320 um, row pitch = 320 um; Humidity 55%; 120 spots per source visit.
  3. Make sure room temperature is between 20-24 degrees Celsius.
  4. Place microtiter plates in the plate hotel with A1 in front left corner.
  5. Place 60 to 120 slides on the slide-deck.
  6. Start spotting early in the morning and stop spotting procedure at end of the day and remove pin set. Leave spotter overnight with vaccuum and humidity settings on. Continue spotting the next morning until all plates are printed.
  7. After spotting, incubate the slides in humid chamber with saturated NaCl for 24 to 72 hours.
  8. Block 1%NH4OH, 0.1% SDS, H2O.
  9. Slides can be stored for at least 6 months in a dry-cabinet.