Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Effect of depletion of alt-LAMA3 on gene expression of HEK293T cells

ABSTRACT: To investigate the depletion of altLAMA3, we established HEK293T cell lines in which alt-LAMA3 gene has been knocked out by CRISPR-Cas9. We then performed gene expression profiling analysis using data obtained from RNA-seq of 2 different cells

ORGANISM(S): Homo sapiens

PROVIDER: GSE205869 | GEO | 2022/06/17

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Effect of depletion of alt-LAMA3 on gene expression of HEK293T cells

Project description:Effect of depletion of alt-LAMA3 on gene expression of HEK293T cells

| PRJNA847974 | ENA

RNA-seq of HEK293T cells overexpressing TET1-FL or TET1-ALT

Project description:TET1 oxidizes methylated cytosine into 5-hydroxymethylcytosine, resulting in regulation of DNA methylation and gene expression. Full length TET1 (TET1-FL) has a CXXC domain that binds to unmethylated stretches of CpG dinucleotides known as CpG islands (CGIs). This CXXC domain allows TET1 to protect CGIs from aberrant methylation but it also limits its ability to regulate genes outside of CGIs. Here we report a novel isoform of TET1 (TET1-ALT) that has a unique transcription start site from an alternate promoter in intron 2, yielding a protein with a unique translation start site. Importantly, TET1-ALT lacks the CXXC domain but retains the catalytic domain. To identify the gene expression targets of TET1-ALT and to compare them to the gene expression targets of TET1-FL, we performed RNA-seq on HEK293T cells that overexpress either Empty Vector (Control), TET1-FL or TET1-ALT.

2017-05-12 | GSE93619 | GEO

Alt-RPL36 downregulates the PI3K-AKT-mTOR signaling pathway by interacting with TMEM24

Project description:We characterize non-annotated protein alt-RPL36 which is encoded by RPL36 transcript isoform 2 and overlaps with the RPL36 open reading frame. Its function is examined by specific CRISPR deletion of the GTG start codon located 5' to the RPL36 ATG initiation site. Overall changes in transcript expression are evaluated by comparison with wild type HEK293T cells. RPL36 protein expression is not affected by the altRPL36 start codon deletion.

2020-12-06 | GSE144979 | GEO

Effect of depletion of YTH family genes on gene expression in Nipponbera rices

Project description:To investigate the function YTH proteins in the regulation of gene expression, we established 12 transgenic lines in which each target gene has been knocked out by CRISPR/Cas9 or knocked down by siRNA. We then performed gene expression profiling analysis using data obtained from RNA-seq of 45 different transgenic lines.

2022-12-31 | GSE207213 | GEO

Effect of depletion of KDM4C on gene expression of JAK2-mutated HEL erythroleukemia cells [RNA-seq]

Project description:To investigate the function of KDM4C in progression of leukemia, we established HEL-Cas9 cell lines in which the target gene has been knocked out by CRISPR/Cas9. We then performed transcriptome analysis using data obtained from RNA-seq of control or KDM4C depletd cells.

2022-05-18 | GSE203060 | GEO

Effect of cisplatin in depletion MAGEA6 expression of esophageal cancer cells

Project description:To investigate cisplatin chemo-sensitivity in established KYSE 150/510 cell lines in which each target gene has been knocked out by CRISPR-Cas9. We performed gene expression profiling analysis using data obtained from RNA-seq of 8 different cells by three biological replicate.

2023-05-01 | GSE229973 | GEO

Effect of podoplanin depletion on gene expressions in canine melanoma cell lines

Project description:To investigate the function of podoplanin, we established CMM2 and CMM12 canine melanoma cell lines in which podoplanin has been knocked out (KO) by CRISPR/Cas9. We then performed gene expression profiling analysis using data obtained from RNA-seq of control and podoplanin KO cell lines.

2022-07-18 | GSE208269 | GEO

Effect of depletion of intestinal TLR4 on gene expression of small intestine

Project description:To investigate the effect of altered intestinal TLR4 expression on acute pancreatitis, we established intestines‐specific TLR4 KO mice in which TLR4 gene has been knocked down by CRISPR-Cas9 We then performed gene expression profiling analysis using data obtained from RNA-seq of gut of wide type mice（n=3） and TLR4ΔIEC mice（n=3）

2023-04-26 | GSE200780 | GEO

GUIDE-Seq analysis of the designed gRNAs (SG1, SG2, SG3, SG4, SG7 and SG8)

Project description:Off-target (OT) analysis of different guide RNAs targeting PKLR gene. GUIDE-Seq analyses were done in HEK293 cells stably expressing Cas9 transfected with gRNA complexes, generated using Alt-R® CRISPR-Cas9 crRNA XT and Alt-R®CRISPR-Cas9 tracrRNA, and transfected with a dsODN tag

2021-04-13 | GSE171935 | GEO

Effect of depletion of TFII-I or TRIM24 on Jurkat T cell activation.

Project description:To investigate the cooperative function TFII-I and TRIM24 in the regulation of T cell activation regulated genes, we established Jurkat Tat cells in which TFII-I was depleted by shRNA and TRIM24 was knocked out by CRISPR-Cas9. We then performed gene expression profiling analysis using data obtained from RNA-seq of cell lines stimulated by PMA and Ionomycin.

2022-12-28 | GSE221633 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data