title: Affymetrix IST_IBB Burkholderia 15K v1.0 [CDF: BCC1sa520656F_Xspecies.CEL80]
status: Public on Dec 01 2012
contact.city: Lisboa
contact.first: Leonilde
contact.middle: Morais
contact.last: Moreira
contact.email: lmoreira@ist.utl.pt
contact.address: A. Rovisco Pais
contact.department: Bioengineering
contact.country: Portugal
contact.institute: Instituto Superior Tecnico
contact.phone: +351 218419031
organism: Burkholderia cenocepacia J2315
  Burkholderia multivorans ATCC 17616
description: This array is identical to GPL13356, but  a custom CDF environment is used to extract data.
  DNA-based probe-selection was performed using Xspecies DNA hyb CDF batchmaker v3.2, available here: http://affymetrix.arabidopsis.info/xspecies/. An optimal signal cutoff of 80 and minimum number of probes per probe set of 7 were determined empirically, resulting in the masking of 24223 of the original 226576 probes on the array and the exclusion of 156 probe sets. Bcc1sa520656F_Xspecies.CEL80.cdf is the resulting cdf file.
manufacture_protocol: See manufacturer's website (www.affymetrix.com).
  The parameters chosen for the custom array design were as follows: 11-micron feature size, standard 12.8-mm array format, prokaryotic antisense target type, perfect-match probes only, full length sequence for probe selection, and eight as the minimum acceptable probes per sequence.