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Series GSE135505 Query DataSets for GSE135505
Status Public on Sep 17, 2019
Title Transcriptome sequencing of HELZ-null HEK293T human cell line generated by CRISPR/Cas9 gene editing
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Eukaryotic SF1 helicases have been implicated in various aspects of RNA metabolism, including transcription, processing, translation, and degradation. Nevertheless, until now most human SF1 helicases remain poorly understood. Here, we have functionally and biochemically characterized the role of a putative SF1 helicase termed ‘Helicase with Zinc-finger’, or HELZ. We discovered that HELZ associates with various mRNA decay factors including components of the CCR4-NOT deadenylase complex in human and Drosophila melanogaster cells. The interaction between HELZ and the CCR4-NOT complex is direct and mediated by an extended low-complexity region in the C-terminal part of HELZ. We further reveal that HELZ uses the deadenylase complex to mediate translational repression and decapping-dependent mRNA decay. Transcriptome-wide analysis of HELZ-null cells suggests that HELZ has an important role in the regulation of the expression of genes associated with the development of the nervous system.
Overall design Two cell types with two biological replicates analysed using RNA-Seq
Contributor(s) Weber R, Igreja C
Citation(s) 31570513
Submission date Aug 07, 2019
Last update date Oct 08, 2019
Contact name Ramona Weber
Organization name University of Zurich
Department Institute for Regenerative Medicine
Street address Wagistrasse 12
City Schlieren
ZIP/Postal code 8952
Country Switzerland
Platforms (1)
GPL21290 Illumina HiSeq 3000 (Homo sapiens)
Samples (4)
GSM4013201 HEK293T, Wild-type replicate 1 for RNA-seq
GSM4013202 HEK293T, Wild-type replicate 2 for RNA-seq
GSM4013203 HEK293T, HELZ-null replicate 1 for RNA-seq
BioProject PRJNA559139
SRA SRP217693

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE135505_DE_HELZ_vs_WT.txt.gz 404.9 Kb (ftp)(http) TXT
GSE135505_readcounts_unfiltered.txt.gz 286.5 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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