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Genomic DNA mixture series in Allele Specific Expression study

ABSTRACT: Genomic DNA of Col-0, Van-0 and their mixture at different proportion were labeled using Bioprime randon labeling kit. A total of 16ug labelled products were hybridized to AtSNPtile1. This experiment is to test whether the log allele intensity ratio efficiently detects the allelic variation within targets.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE16504 | GEO | 2009/08/15

SECONDARY ACCESSION(S): PRJNA122907

REPOSITORIES: GEO

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Genomic DNA mixture series in Allele Specific Expression study

Project description:Genomic DNA of Col-0, Van-0 and their mixture at different proportion were labeled using Bioprime randon labeling kit. A total of 16ug labelled products were hybridized to AtSNPtile1. This experiment is to test whether the log allele intensity ratio efficiently detects the allelic variation within targets. Templates include four Col genomic DNA replicates, four Van genomic DNA replicates, three Col and Van 1:1 mixture replicates, and one of each 1:2, 1:3, 1:5, 2:1, 3:1, 5:1 Col and Van mixture. Single chanel. Total 17 samples.

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Genomic DNA concentration series in Allele Specific Expression study

Project description:Genomic DNA of COl-0 and Van-0 were labeled using Bioprime randon labeling kit. Labelled products were hybridized to AtSNPtile1 at a total amount of 6ug, 9ug, 12ug, 15ug, and 18ug. This experiment is to test whether the overall target amount affect the log allele intensity ratio. Each genotype has 5 hybridizations each at 6ug, 9ug, 12ug, 15ug and 18ug. Single chanel. Total two genotypes (Col, Van). Total 10 samples.

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Project description:Genomic DNA of Col-0 and Van-0 were mixed at 1:1 and labeled using Bioprime randon labeling kit. A total of 16ug labelled products were hybridized to AtSNPtile1. Used as the reference of equal allele expression. Col and Van genomic DNA were mixed at 1:1 with four biological replicates. Single chanel. Total 4 samples.

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Project description:Genomic DNA of Col, Van and reciprocal hybrids, bioprime random labeling, and hybridization to AtTILE1 forward array. Study on genetic ploymorphic between arabidopsis thaliana accessions Col-0 and Van-0, and set the scale of F1 hybrid intensity for SFPs.

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