title: Agilent Human, KSHV, and EBV 44K AMADID #027774
status: Public on Dec 30 2011
contact.city: Pittsburgh
contact.first: Lindsay
contact.middle: Renee
contact.last: Dresang
contact.email: lid26@pitt.edu
contact.state: PA
contact.address: 5117 Centre Ave, Hillman Cancer Res. Pav. 1.8
contact.department: Cancer Virology Program
contact.country: USA
contact.institute: University of Pittsburgh
organism: Homo sapiens
  human gammaherpesvirus 4
  Human gammaherpesvirus 8
manufacture_protocol: Refer to Agilent Technologies website for custom 4X44K array printing with Sure Print technology (www.genomics.agilent.com/GenericB.aspx?PageType=Custom&SubPageType=Custom&PageID=2011)).  This platform contains control probes for background correction and spike-in hybridization.
  Tiling of KSHV, EBV, and control cellular and reporter genes were initially tiled with 60bp oligomers with 30bp overlap (straight tiling).  Major repeats were represtented once.  Initial experiments (not associated with the corresponding article) were performed to determine regions with significant background hybridization.   These regions were retiled according to Best-Tm and Best-Distribution methodologies available on the eArray website for custom microarray design (earray.chem.agilent.com).   Gaps were tolerated at <300 bp, with some exceptions as described in the methods section of the corresponding article.  All non-Agilent based probes were present in triplicate.