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Gene expression assay from Raji human B cells

ABSTRACT: Nuclear RNA from Raji human B cells was hybridized to NimbleGen arrays to quantify gene expression levels.

ORGANISM(S): Homo sapiens

PROVIDER: GSE43750 | GEO | 2013/02/16

SECONDARY ACCESSION(S): PRJNA187328

REPOSITORIES: GEO

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Gene expression assay from Raji human B cells

Project description:Nuclear RNA from Raji human B cells was hybridized to NimbleGen arrays to quantify gene expression levels. Three biological replicates, each hybridized to new array.

2013-02-16 | E-GEOD-43750 | biostudies-arrayexpress

Expression of the TM4SF member CD9 on the human Burkitts lymphoma cell line Raji

Project description:Expression of the TM4SF member CD9 on the human Burkitts lymphoma cell line Raji induced increased cell proliferation, motilty and adhesion to fibronectin. CD9 promoted increases in Raji cell proliferation was dependent upon histone deacetyalase (HDAC) activity as treatment with HDAC inhibitors trichostain A or cucurmin attenuated CD9 mediated increases in Raji cell proliferation. Gene expression of Raji cells stably expressing human CD9 via transfection with expression vector PRVCMVCD9 was compared with corresponding Mock transfected cell by microarray analysis using the Affymetrix U133 2.0 platform.

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Effect of bryostatin-1 on gene expression profile of Raji cells

Project description:To investigate bryostain's effect on Raji , we performed a whole-transcriptome RNA sequencing experiment for Raji cells treated with Bryostatin and established differntial expression profile comparing to raji treated with DMSO.

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Determine genes differentially expressed between Raji cells and a subline which is resistant to APTO-253 (Raji/253R)

Project description:To obtain further insight into the resistance mechanism, RNA-seq analysis was carried out on 3 independent samples of both the sensitive Raji and resistant Raji/253R cells. A gene-level differential expression analysis was performed by removing all genes with less than 50 reads across all 6 samples as genes with only low level expression can cause irregularities in differential expression analysis. Genes were considered to be differentially expressed if their adjusted p-value was less than the 0.05 level and their fold change was >2 in either direction. Among the 13,791 evaluable genes there were 1,012 that were significantly up-regulated in the Raji/253R cells and 704 genes that were significantly down regulated relative to the parental sensitive Raji cells. The ATP-binding cassette sub-family member ABCG2 was the most up-regulated gene with more than a thousand-fold increase in transcript level. Genes were considered to be differentially expressed if their adjusted p-value was less than the 0.05 level and their fold change was >2 in either direction.

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Transcription profiling of human Burkitts lymphoma cells line Raji expressing the TM4SF member CD9

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Transcriptome analysis of total RNA in the Raji B cell line

Project description:RNA-seq was performed for total RNA in the Raji B cell line

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RNA-seq in Raji cells with inducible BZLF1 prior to and after induction of EBV's lytic cycle by doxycycline

Project description:(i) RNA transcripts of Raji iBZLF1 cells (https://www.biorxiv.org/content/10.1101/573659v1) were compared between non-induced cells and cells induced with doxycycline (100 ng/ ml) for 6 h. Human (Hg19) as well as viral (EBV, Raji KF717093.1) transcripts were analyzed. Artificial ERCC Spike-ins (Thermo Scientific) were added to selected samples to control for global changes of RNA levels. (ii) For control purposes, the RNA transcripts in Raji cells equipped with a doxycycline-controlled truncated BZLF1 allele lacking its transactivation domain (Raji iBZLF1 AD-truncated) were prior to and after induction for 6 h. (iii) For another control, the RNA transcripts of parental, unmodified Raji cells were analyzed prior to and after doxycycline induction for 6 h. All experiments were performed as triplicates.

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Direct long-read RNA sequencing of Raji cells

Project description:To identify full-length cap-to-poly(A) mRNA isoforms of CD20 and rule out reverse transcription artifacts which are common in cDNA-seq approaches, long-read Oxford Nanopore direct RNA sequencing was performed on the Raji cell line.

2023-12-08 | GSE243920 | GEO

Suz12 target promoters in Ntera, MCF7 and SW480 cells

Project description:For each sample a matched total was produced in parallel. Amplicons were made from each and hybridized on human 5.0 kb promoter arrays from Nimblegen. Keywords: ChIP-chip

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Expression of placental genes in STOX1 overexpressing mice at 16.5 days of gestation versus WT mice

Project description:Two pools of three placentas from transgenic mice of the TG13 strain and WT mice were hybridized on Nimblegen Arrays. TG13 mice overexpress the gene STOX1 and have the symptoms of severe preeclamsia.

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