title: Neisseria meningitidis MC58 hfq- mutant examination array
status: Public on Feb 11 2010
contact.city: Boston
contact.first: Ryan
contact.middle: S
contact.last: McClure
contact.email: mcclur30@bu.edu
contact.state: MA
contact.address: 650 Albany St.
contact.department: Microbiology
contact.country: USA
contact.institute: Boston University
organism: Neisseria meningitidis MC58
description: DNA microarrays were designed by Nimblegen Inc. (Nimblegen, Madison, WI) using the N. meningitidis MC58 genome as a reference (Genbank, accession # NC_003112) (Tettelin et al., 2000).  Arrays were designed using the Nimblegen 4-plexTM format consisting of four arrays on each individual chip.  Each array contained 72,000 probes, for a total of 385,000 probes per chip.   For interrogation of each target open reading frame, ten unique corresponding 60-mer synthetic DNA oligonucleotide probes were synthesized directly onto Nimblegen 4-plexTM arrays, and each probe was printed in duplicate.  100% of identified open reading frames were represented on the arrays.  Intergenic probes were also printed on each array in duplicate.  An additional set of 859 random sequence oligonucleotide probes were designed and included on the arrays to estimate non-specific binding.
  The design (.ndf) file and description (.ngd) file are available as Supplementary files (at the foot of this record).
  The .ndf file contains oligo probe sequence information.
  NCBI Reference Sequence: NC_003112.2
manufacture_protocol: See manufacturer's website at http://www.nimblegen.com/.