title: 10K CombiRat Array
status: Public on Sep 15 2007
contact.city: Sydney
contact.first: Ruby
contact.middle: CY
contact.last: Lin
contact.email: rubyl@unsw.edu.au, ruby.lin@sydney.edu.au
contact.state: NSW
contact.address: 176 Hawkesbury Road, Westmead
contact.country: Australia
contact.institute: The Westmead Institute for Medical Research
organism: Rattus norvegicus
description: Combined MWG and Compugen 10K glass slide spotted rat oligonucleotide-arrays were used. Each microarray slide consisted of 21,888 spots, including 10,752 probes and 192 control spots, printed in duplicate. The combined 5K Compugen and 5K MWG rat oligonucleotide probe sets dated back to 2002. The 5K Compugen (SigmaGenosys) consists of 65-mer oligos compared to 5K MWG has 50-mer oligo set.
manufacture_protocol: All slides printed at the Ramaciotti Centre were generated on ESI ChipWriter (Bio-Rad). To avoid carryover, pins were treated for 1 cycle with a 5 min ddH2O sonication, 5 s 100% isopropanol wash and dry for 1 min with compressed air between print loads. Printing solution was MWG Spotting Buffer (MWG-Biotech, Ebersberg, Germany). Oligonucleotides were from 5' amine modified 65-mer for Rattus norvegicus (5K Compugen Rat OligoLibraryTM, SigmaGenosys) and similarly 5' amine modified 50-mer for Rattus norvegicus (MWG 5K, SigmaGenosys). The slide type for this batch of printing was Schott Nexterion A (Inbio, Bioinsight Pty Ltd). In addition, LucideaTM Universal ScoreCardTM controls (GE Healthcare Life Sciences) were printed on the array. Both libraries and controls were printed in duplicates. Printing was performed in 65 % (SD ± 2%) humidity at 21 °C. The array printer used a print head with a 12 x 4 arrangement of print-tips and each microarray slide was partitioned into a 12 x 4 grid of tip groups. Each grid consists of 22 x 24 spots that were printed with a single print-tip.