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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 Homo sapiens unidentified

PROVIDER: GSE2252 | GEO | 2005/05/25

SECONDARY ACCESSION(S): PRJNA91355

REPOSITORIES: GEO

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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

2005-05-25 | E-GEOD-2252 | biostudies-arrayexpress

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Project description:Drosophila mosaic eye-antennal discs from the listed genotypes generated using the MARCM system were dissected from 3rd instar larvae at day 5 after egg deposition. 20 pairs of discs for the Abrupt and scrib- + Abrupt samples and 50 pairs from FRT control, NACT scrib- +/- BskDN and RasACT scrib- +/- BskDN were used to prepare RNA. Samples were prepared in triplicate, and the RNA isolated using TRIZOL, before being column purified (Qiagen). Probes were hybridized to GeneChip Drosophila 2.0 Genome Arrays (Affymetrix).

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Project description:Suz12 samples are biological replicates from F9 cells crosslinked on different days. EZH2 and H3me3K27 samples are from the same batch of crosslinked cells as Suz12 replicate 2. For each sample matched total was prepared in parallel. Amplicons were made and hybridized on custom genomic tiling arrays. Keywords: ChIP-chip

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Suz12, EZH2, EED1, H3me3K27, H3me3K9 and RNA Pol II target promoters in mouse F9 and mES cells

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Triiodothyronine Treatment: Effects on vastus lateralis skeletal muscle

Project description:Healthy men received 75 5g/d of T3 for 14 days. Microbiopsies of vastus lateralis skeletal muscle were performed before and after the treatment. For microarray experiments, we used samples from five subjects. After amplification of total RNA (Wang et al. 2000a), fluorescently labeled cDNA was prepared from each experimental sample. For each subject, probes from basal and T3 treatment conditions labeled with cyanine (Cy) 3 or Cy5 dyes were hybridized to cDNA microarray. After a filtering procedure to eliminate bad-quality spots and background correction, log2 transformed data for each experiment were normalized and centered to the mean. Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc. Keywords: Logical Set

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CCF_Almasan_CaPK

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Expression data from the cerebral cortex of sugarcane top ethanolic extract (STEE)-administered SAMP8 mice, water-administered SAMP8 mice, and water-administered SAMR1 mice.

Project description:STEE regulated a wide range of biological processes in the cerebral cortex of SAMP8 mice. RNA samples were extracted from cerebral cortices with Isogen (Nippon Gene, Toyama, Japan) and were amplified and biotinylated with Affymetrix 3’ IVT PLUS Reagent Kit (Affymetrix, Santa Clara, CA), according to the manufacturer’s instructions. The integrity of RNA was quantified using NanoDrop 2000 spectrophotometer (Thermo Scientific, Wilmington, DE) and one hundred ng of total RNA from each sample was used to generate amplified and biotinylated complementary RNA (cRNA) from poly (A) RNA in a total RNA. Biotinylated cRNA was hybridized onto Affymetrix Mouse Genome 430 PM array strips (Affymetrix) for 16 hrs at 45℃ in the hybridization station. The hybridized arrays were washed, stained, and scanned with GeneAtlas Fluidics and Imaging Station.

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IFN-Gamma keratinocytes

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