Pluto Bioinformatics

GSE93543: Evaluating and comparing the Transcriptome of (human) Hek 293 based cells, expressing either CHD3 or CHD4

Bulk RNA sequencing

Purpose: Identifying target genes of the two human chromatin remodeling enzymes CHD3 and CHD4; Methods: see below in protocols; Results: Libraries were sequenced on Illumina HiSeq2000 platform resulting in 37-71 Mio 50 bp paired-end reads per sample. We identified 16 (i) and 115 (ii) distinctly regulated genes when CHD3-GFP (i) or CHD4-GFP (ii) were overexpressed. Nine genes seem to be commonly regulated by CHD3 and CHD4. We successfully validated four genes from our RNA-seq via qPCR with two new (independent from those, used for RNA-seq) biological replicates.; Conclusion: CHD3 and CHD4 regulate distinct genes. SOURCE: Gernot Laengst (gernot.laengst@vkl.uni-regensburg.de) - University of Regensburg