title: Dmel_arrayplatform
status: Public on Jul 24 2003
contact.city: New Haven
contact.first: Tong-Ruei
contact.last: Li
contact.email: tong-ruei.li@yale.edu
contact.state: CT
contact.address: 333 Cedar St. Rm#NSB386
contact.department: Department of Genetics
contact.country: USA
contact.institute: Yale University School of Medicine
contact.phone: 203-785-4474
organism: Drosophila melanogaster
description: Spotted array using PCR fragments of approximately 95% of the genes in the D. melanogaster BDGP genome.
  
  We followed a sequence of decreasingly stringent tests to pick optimal primer pairs for the PCR fragments on the arrays.  For each gene, we looked for (first) a 500b to 2kb sequence at the 3’ end and, failing this, (second) two 200b to 500b sequences in:(1) coding sequence, completely within an EST clot, and unduplicated (BLAST<=10^-4); (2) coding sequence, partially within an EST clot, unduplicated; (3) coding sequence, unduplicated; (4) exon, completely within an EST clot, unduplicated; (5) exon, partially within an EST clot, unduplicated; (6) exon, unduplicated; (7) sequence less than 2kb at the 3’ end.  See above for the other details about making these arrays.