title: Nimblegen Whole Genome Apple Array [120906_Malus_PT_expr]
status: Public on Aug 22 2016
contact.city: San Michele all'Adige
contact.first: Fabrizio
contact.last: Costa
contact.email: fabrizio.costa@unitn.it
contact.state: N/A = Not Applicable
contact.address: Via Mach 1
contact.department: Center Agriculture Food Environment
contact.country: Italy
contact.institute: University of Trento
contact.phone: 0039-0461615563
organism: Malus domestica
description: 12-plex array with 135,000 features per subarray
  
  designid=574211
  designname=120906_Malus_PT_expr
  
  native array description file: 120906_Malus_PT_expr.ndf
  native array description file: 120906_Malus_PT_expr.ngd
  
  This array was designed starting from a RNA-seq of the samples we hybridised on the array.
  When the sequence alignment matched the genome, they were coded with MDP0000xxx as reported at https://www.rosaceae.org/gb/gbrowse/malus_x_domestica_v1.0-primary/.
  However, with RNA-seq we discovered novel genes, thus they are coded as CUFF (derived by Cufflinks, the software used by the bionic to count the reads from the RNA-seq), and they are not currently available in any database.
manufacture_protocol: Standard NimbleGen manufacture protocol.