title: [GLYCOv2a520086F] Custom Affymetrix Glyco v2 GeneChip
status: Public on Oct 23 2010
contact.city: La Jolla
contact.first: Steven
contact.last: Head
contact.email: shead@scripps.edu
contact.state: CA
contact.address: 10550 N Torrey Pines Rd
contact.country: USA
contact.institute: The Scripps Research Institute
contact.phone: 858 784-2263
organism: Homo sapiens
  Mus musculus
description: The Glyco v2 array was designed in 2003 and consists of probesets targeting genes coding for glycosyl transferases, carbohydrate binding proteins, glycan degradation enzymes, nucleotide sugar transporters, mucins, adhesion molecules, chemokines, cytokines, growth factors and their receptors, interleukins and their receptors and proteoglycans. In addition, a set of "housekeeping" and control genes are included on the array. The array contains probe set for both mouse and human gene sequences and can be use to analyze RNA from both species.
  
  Most of the human and mouse probe sets on the Glyco v2 array were taken directly from the v1 array (based on commercial U133A,B human array) with some  probesets designed by Affymetrix from accessions for genes not well represented by the U133A,B. Additional carbohydrate related genes were added to the v2 array relative to the v1 array. In most cases, probesets consist of 11 probe pairs designed using the Perfect Match/Mismatch approach developed by Affymetrix.
  
  Immediately prior to our deadline for submittal of the v2 array design, Affymetrix introduced format changes to their custom array product line that substantially increased the available space on the v2 array. To address we represented most probe sets in triplicate or duplicate on the array. For example, the probe set for thrombomodulin (THBD) appears as:  203887 _Copy1_at,  203887 _Copy2_at,  203887 _Copy3_at where each copy represents an identical and independent set of probe pairs targeting the thrombomodulin transcript.
  
manufacture_protocol: see manufacturer's web site