title: KTH Hum 34k Oligo Microarray
status: Public on Feb 10 2011
contact.city: Uppsala
contact.first: Katarina
contact.last: Edfeldt
contact.email: Katarina.Edfeldt@surgsci.uu.se
contact.address: Akademiska Sjukhuset
contact.department: Surgical Sciences
contact.country: Sweden
contact.institute: Uppsala University
organism: Homo sapiens
manufacture_protocol: Version 3.0 of the Human Genome Oligo Set contains 34,580 70mer probes representing 24,650 genes and 37,123 gene transcripts. The design is fully based on the Ensambl (http://www.ensambl.org/) Human 13,31 Database and Human Genome Sequencing Project and directly deals with alternative splicing variants using common , partial common, or individual transcript oligos. The oligo set comes with complete annotation including Gene Ontology (GO), oligo chromosome coordinates, comparative genome analysis, and other functional annotation (InterPro, Online Mendelian Inheritance in Man [OMIM] disease, and protein family) For probe design state-of-the-art methodology was used and proprietary software. An amino linker is attached to the 5`end of each oligo. http://www.operon.com/arrays/oligosets_human.php
  The 34,580 70mer probes were dissolved in 30% DMSO to a concentration of 18 µM. The microarrays were printed with a QArray2 (Genetix) instrument with 48 K2805 pins (Genetix) on Ultra GAPS slides (Corning). The 34,580 longmer probes were spotted in a 28x28 pattern within each block and with a feature center-to-center distance of 155 µm. The quality of the spotted slides was assessed by staining with Syto61 (Molecular Probes) and with hybridization with random nonamers. The slides were UV cross-linked at 150 mJ/cm2.