FBXO10 deficiency and BTK activation upregulate BCL2 expression in mantle cell lymphoma
Transcriptomics Dataset
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General Information
AccessionGSE80563
TitleFBXO10 deficiency and BTK activation upregulate BCL2 expression in mantle cell lymphoma
DescriptionPurpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to identify BTK targets by RNA-seq and high-throughput data analysis and verify these genes by quantitative reverse transcription polymerase chain reaction (qRTPCR) methods Methods: mino/z138 sc4/shbtk stable cell lines were generated with tet-on system vector, small hairpins were induced for 48 hours after doxycycline addition, mRNA was exacted and used for RNA sequencing. After TopHat analysis followed by Cufflinks, down/up regulated genes list was generated. qRTPCR validation was then performed using SYBR Green assays Results: Using an optimized data analysis workflow and with a fold change 1.3 and p value <0.05, thousands of genes were changed. Altered expression of 6 genes was then confirmed with qRTPCR, demonstrating the high qulity of the RNA-seq method.
Landing Pagehttps://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE80563
RepositoryGene Expression Omnibus
Tools used to analyze the dataset
Dataset Accession
ARCHS4
Published September 2017
ARCHS4 provides access to gene counts from HiSeq 2000 and HiSeq 2500 platforms for human and mouse experiments from GEO ...
4645
Clustergrammer
Published October 2017
Web-based tool for visualizing and analyzing high-dimensional data as interactive and shareable heatmaps
4645
Canned Analyses generated with the dataset
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Tool Name
Interactive heatmap visualization of RNA-seq dataset GSE80563
ARCHS4, Clustergrammer
Highly interactive web-based heatmap visualization of the top 500 most variable genes in t...
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