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| Application: |
Expression |
AMADID: |
025055 |
| Format: |
IS-45220-4-V1 |
Date Created: |
08/17/2009 |
| Species: |
Salmo salar O mykiss |
Date Last Updated: |
05/18/2011 |
| Probe#: |
43689 |
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| Salmonid oligo array |
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| ESTs and contigs from Koop et al. 2008 plus 455 from NCBI |
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| The selection process was
strongly biased in favor of 3' region of consensus transcripts derived
from the assembly of multiple high quality EST sequences. Sequences
identified by Gene Ontology were included. The oligos derived from the
contigs were 60bp in length in comparison to the 70mer 22K array
formerly designed. Default Tm was used. |
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| This array is based on an initial 22K 70mer oligo microarray design
plus 20,411 additional contigs from Atlantic salmon (Salmo salar) and
rainbow trout (Oncorhynchus mykiss). The initial 22K oligos were
designed to capture non-redundant conserved sequence areas (> 95%
similar) between Rainbow trout and Atlantic salmon, primarily located
in the 3' most 600-800bp of assembled contigs. The array is composed
mainly of Atlantic salmon elements with 7-8K rainbow trout cDNA
elements or features. 84% are well annotated with fairly stringent
hits (e-value cutoff: 1e-10) to public databases (December 17, 2009).
Efforts to annotate contigs that are unknown thus far will continue. Please refer to Array Description file for more information on the design.
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