H133plus2.0 gene chips

Manufactured by Thermo Fisher Scientific

The H133Plus2.0 gene chips are a high-density microarray platform designed for comprehensive gene expression analysis. These chips contain probes targeting over 47,000 human transcripts, providing a comprehensive view of the human transcriptome. The H133Plus2.0 gene chips are a tool for researchers to study gene expression patterns and profiles in various biological samples.

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Lab products found in correlation

Affymetrix genechip 3000, by Thermo Fisher Scientific (1 mentions) Genespring, by Agilent Technologies (1 mentions) One cycle target labeling kit, by Thermo Fisher Scientific (1 mentions) Bioanalyzer, by Agilent Technologies (1 mentions)

2 protocols using h133plus2.0 gene chips

Transcriptional Profiling of BRD4 Inhibition

Cited 2 times

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Ovcar8 cells were transfected with either siNeg or siBRD4 in 3 independent plates and harvested 48hr post-transfection. For chemical inhibition, JQ1 was added for 24hr at final concentration 0.5μM in Ovcar8; DMSO was used for control in 3 independent plates. Total RNA was isolated using RNeasy with on-column DNase treatment (Qiagen). Microarray analysis was previously described [2 (link), 6 (link)]. Briefly, samples were prepared, labeled and hybridized to Affymetrix H133Plus2.0 gene chips and scanned on Affymetrix GeneChip 3000 (Affymetrix, Santa Clara, CA). CEL files were imported into GeneSpring (Agilent); probe levels were normalized by GC-RMA algorithm, and entities with intensity values <100 were filtered out before performing significance analysis. Gene set enrichment analysis (GSEA) was performed in the drug treated group and the siRNA group. Hallmark signatures shared in common between these two groups with false discovery rate (FDR) <0.1 [31 (link)].

Pongas G., Kim M.K., Min D.J., House C.D., Jordan E., Caplen N., Chakka S., Ohiri J., Kruhlak M.J, & Annunziata C.M. (2017). BRD4 facilitates DNA damage response and represses CBX5/Heterochromatin protein 1 (HP1). Oncotarget, 8(31), 51402-51415.

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Transcriptome Profiling of Ovarian Cancer

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Total RNA was isolated from 3 independent cultures of ovarian cancer cells grown on traditional or ultra low attachment 75 cm cell culture flasks in presence of traditional serum-containing media or serum-free stem cell media. Samples were submitted to Laboratory of Molecular Technology, SAIC/NCI-Frederick and RNA quality checked on an Agilent Bioanalyzer; only samples having high quality score (RIN>9) were used for microarray analysis. RNA (1ug) was reverse transcribed with T7-oligo (dT) primers and labeled with biotin using the Affymetrix One Cycle Target Labeling Kit. All replicates of experimental samples were prepared, labeled and hybridized to Affymetrix H133 Plus 2.0 gene chips and scanned on an Affymetrix GeneChip scanner 3000 (Affymetrix, Santa Clara, CA). Data sets are available on the GEO repository (GSE94358).

House C.D., Jordan E., Hernandez L., Ozaki M., James J.M., Kim M., Kruhlak M.J., Batchelor E., Elloumi F., Cam M.C, & Annunziata C.M. (2017). NF-kB promotes ovarian tumorigenesis via classical pathways that support proliferative cancer cells and alternative pathways that support ALDH+ cancer stem-like cells. Cancer research, 77(24), 6927-6940.

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