NASC Stock Detail Page
NASC ID: N781645
Name: Gene Chip Barley Genome Array
Description: The GeneChip® Barley Genome Array contains more than 22,500 probe sets representing transcripts of Hordeum vulgare. The GeneChip Barley Genome Array was designed and funded by the USDA-IFAFS Triticeae Improvement group in collaboration with Affymetrix and the international barley community. Sequences used for the array design were collected from consortia labs submitting EST sequences and by collecting sequences from the NCBI/GenBank® non-redundant database. Approximately 400,000 raw barley ESTs were submitted from 84 libraries, and about 350,000 survived quality pruning. Stringent CAP3 clustering (-p95 -d60 -f100 -h50) was performed and resulted in 53,030 “unigenes” (26,634 contigs and 26,396 singletons). 25,500 contigs and singletons had complete 3’ ends suitable for array design (see HarvEST Triticeae v0.95 and higher). This included all 1,145 known barley genes (including alleles) from the NCBI non-redundant database. The non-redundant cloned gene set was integrated with the EST clusters to aid in scaffolding the ESTs and also to retrieve any rare, interesting genes (e.g., Mla, Rar1, Sgt1, Rpg1) for inclusion on the GeneChip microarray. After pruning against an enhanced Triticeae repeat element database (TREP), the exemplar set of 25,500 contigs and singletons was submitted to Affymetrix for initial computation.
Donation Date: 0000-00-00
Donor Number: 900515
Part of : Affy Gene Chip Service
Material type: microarray service
| Status | Price (£) |
|---|---|
| Available | £ 350.00 |
Germplasm Info
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