title: UMDNJ Human SNP Array
status: Public on Jul 25 2008
contact.city: Piscataway
contact.first: Minjie
contact.last: Luo
contact.email: luomj@rci.rutgers.edu
contact.state: NJ
contact.address: 675 Hoes Lane
contact.department: Microbiology & Molecular Genetics
contact.country: USA
contact.institute: University of Medicine and Dentistry of New Jersey
organism: Homo sapiens
description: Totally 65 markers were included in the array.They are multi-site variants (MSV), paralogous sequence variant(PSV), SNPs in duplicons (SIDs), and SNP in unique region. Each maker were printed four times. Their RS numbers were shown in processed data. Here we listed the characteristics of each marker.
manufacture_protocol: 1.preparation of microarray slides: Pre-cleaned Gold Seal Micro slides (Becton Dickinson) were soaked in 30% bleach with shaking for 1–2 hrs followed by rinsing five times with deionized H2O and three times with MilliQ H2O. Slides were then sonicated in 15% Fisher brand Versa-Clean Liquid Concentrate with heat on for 1–2 hrs followed by rinsing with shaking 10 times in deionized H2O and five times in MilliQ H2O. Slides were dried by centrifugation at 1,000 rpm for 5 min with a slide holder in a GS-6 Beckman centrifuge, and then were baked at 140°C in a vacuum oven for 4–5 hrs (Fisher Scientific Model 280A);
  2.Each oligonucleotide probe was mixed with the Microarray Printing Solution (GenScript, Piscataway NJ) at a 1:5 ratio (v/v) to a final concentration of 50 μM in a well of a 384-well plate.
  3.Probes were then arrayed onto the washed glass slides with humidity between 50% and 55%, and temperature between 24.5°C to 26.5°C.