title: Aguiar Human 41K miRNA CGH
status: Public on Mar 16 2009
contact.city: Boston
contact.first: Cheng
contact.last: Li
contact.email: cli@hsph.harvard.edu
contact.state: MA
contact.address: 44 Binney St
contact.department: Biostatistics and Computational Biology
contact.country: USA
contact.institute: Dana-Farber Cancer Institute
organism: Homo sapiens
manufacture_protocol: The miRTile platform was designed using the eArray interface  (Agilent Technologies). In brief, the genomic coordinates from 474 miRNA genes  (miRBase release V9.0, October 2006) were extracted and used to search for all  oligonucleotide probes available in the Agilent catalogue located within a ~ 35kb area  surrounding each precursor miRNA sequence. Probes were available to cover all but 3  miRNA loci (miR511-1, miR-511-2 and miR-550-2) included in the miRBase release  V9.0. Thus, our platform effectively tiled the loci for 471 miRNAs. In addition, probes  mapping to the entire genomic locus of 17 mRNA genes that are known to play a role in  microRNA biogenesis were also identified and included in this platform (Supplementary  Table 2 of the paper). These high density tilling arrays were printed in the 4 X 44K slide format  including 41631 oligoprobes (~55bp long, 44-59bp) with a total genomic coverage of  11.6 Mb encompassing 309 unique chromosomal regions Backbone probes between  microRNA gene loci were included in the array at approximately 1 Mb intervals.