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Use of an Isothermal Linear Amplification Method with Small Samples on DNA Microarrays

ABSTRACT: Experiment 1: U133A arrays (2) hybridized to duplicate sscDNA samples prepared from 20 ng Clontech UHR RNA Experiment 2: Mu6500A arrays (6) hybridized to triplicate sscDNA samples prepared from 3 x 5 ng mouse liver RNA and 3 x 100 ng mouse liver RNA Experiment 3: U95Av2 arrays (6) hybridized to triplicate sscDNA samples prepared from 3 x 10 ng K562 RNA and 3 x 10 ng Stratagene UHR RNA Experiment 4: U95Av2 array (1) hybridized to sscDNA sample prepared from template minus reaction (negative control) Keywords: parallel sample

ORGANISM(S): Mus musculus

SUBMITTER: Michael Salazar

PROVIDER: E-GEOD-2252 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Increased DNA microarray hybridization specificity using sscDNA targets.

Barker Christopher S CS Griffin Chandi C Dolganov Gregory M GM Hanspers Kristina K Yang Jean Yee Hwa JY Erle David J DJ

BMC genomics 20050422

<h4>Background</h4>The most widely used amplification method for microarray analysis of gene expression uses T7 RNA polymerase-driven in vitro transcription (IVT) to produce complementary RNA (cRNA) that can be hybridized to arrays. However, multiple rounds of amplification are required when assaying very small amounts of starting RNA. Moreover, certain cRNA-DNA mismatches are more stable than the analogous cDNA-DNA mismatches and this might increase non-specific hybridization. We sought to dete ...[more]

PMID: 15847692

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Use of an Isothermal Linear Amplification Method with Small Samples on DNA Microarrays

Project description:Experiment 1: U133A arrays (2) hybridized to duplicate sscDNA samples prepared from 20 ng Clontech UHR RNA Experiment 2: Mu6500A arrays (6) hybridized to triplicate sscDNA samples prepared from 3 x 5 ng mouse liver RNA and 3 x 100 ng mouse liver RNA Experiment 3: U95Av2 arrays (6) hybridized to triplicate sscDNA samples prepared from 3 x 10 ng K562 RNA and 3 x 10 ng Stratagene UHR RNA Experiment 4: U95Av2 array (1) hybridized to sscDNA sample prepared from template minus reaction (negative control) Keywords: parallel sample

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