title: UCSC-Cryptococcus neoformans H99 gene expression microarray
status: Public on Nov 10 2010
contact.city: Roma
contact.first: ada 
contact.last: florio
contact.email: adaflorio@yahoo.it
contact.state: Roma
contact.address: Largo A. Gemelli 8
contact.department: Microbiology
contact.country: Italy
contact.institute: Catholic University of Sacred Heart
contact.phone: 0630154964
organism: Cryptococcus neoformans H99
description: Agilent-023250
manufacture_protocol: C. neoformans H99 microarrays were designed following the Agilent eArray Design guidelines by first creating two separate sets of 60-base nucleotide probes for each of the 6,967 open reading frame (ORF) sequences as downloaded from the Broad Institute website (http://www.broadinstitute.org/annotation/genome/cryptococcus_neoformans/MultiHome.html). The probe selection was performed using the GE Probe Design Tool; probes were filtered following their base composition and distribution, cross-hybridization potential, and melting temperature to yield final duplicate probes representing 6,823 ORFs to cover 97.9% of the whole C. neoformans H99 genome. C. neoformans custom arrays were manufactured in the 8 x 15k format by Agilent Technologies (Santa Clara, Calif.). For quality control and normalization purposes, 157 probes were selected randomly and spotted 10 times throughout each array. Standard controls (Agilent Technologies) were also included.