Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Next Generation Sequencing identifies differential genes regulated by FTSJ1 overexpression

ABSTRACT: We report the application of RNA-sequencing for high-throughput profiling of transcriptomes in PC9 cells transfected with stably expressed FTSJ1.

ORGANISM(S): Homo sapiens

PROVIDER: GSE146604 | GEO | 2020/05/19

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Next Generation Sequencing identifies differential genes regulated by FTSJ1 overexpression

Project description:Next Generation Sequencing identifies differential genes regulated by FTSJ1 overexpression

| PRJNA611060 | ENA

The ribose methylation enzyme FTSJ1 has a conserved role in neuron morphology and learning performance

Project description:FTSJ1 is a conserved human 2’-O-methyltransferase (Nm-MTase) that modifies several transfer RNAs (tRNAs) at position 32 and the wobble position 34 in the AntiCodon Loop (ACL). Its loss of function has been linked to Non-Syndromic X-Linked Intellectual Disability (NSXLID), and more recently to cancers. However, the molecular mechanisms underlying these pathologies are currently unclear. Here we report a novel FTSJ1 pathogenic variant from a NSXLID patient. Using blood cells derived from this patient and other affected individuals carrying FTSJ1 mutations, we performed an unbiased and comprehensive RiboMethSeq analysis to map the ribose methylation (Nm) on all tRNAs and identify novel targets. In addition, we performed a transcriptome analysis in these cells and found that several genes previously associated with intellectual disability and cancers were deregulated. We also found changes in the miRNA population that suggest potential cross-regulation of some miRNAs with these key mRNA targets. Finally, we show that differentiation of FTSJ1-depleted human neuronal progenitor cells (NPC) into neurons displays long and thin spine neurites compared to control cells. These defects are also observed in Drosophila and are associated with long term memory deficit in this organism. Altogether, our study adds insight into FTSJ1 pathologies in human by the identification of novel FTSJ1 targets and the defect in neuron morphology.

2023-01-06 | GSE179384 | GEO

P0.5 WT or Ftsj1 KO mouse brain or liver total mRNA or ribosome-contained mRNA

Project description:P0.5 WT or Ftsj1 KO mouse brain or liver ribosome-contained mRNAs or total mRNAs, and were sequenced using MiSeq and HiSeq.

2021-03-31 | GSE153797 | GEO

WT or Ftsj1 KO mouse brain

Project description:WT or Ftsj1 KO mouse brain

| PRJNA643976 | ENA

FTSJ1 patients RNASeq

Project description:RNASeq: FTSJ1 tRNA Nm-MTase: new human targets and role in the regulation of brain-specific genes

| PRJEB46399 | ENA

FTSJ1 patients RiboMethSeq

Project description:RiboMethSeq FTSJ1 tRNA Nm-MTase: new human targets and role in the regulation of brain-specific genes

| PRJEB46400 | ENA

Next Generation Sequencing identifies differentially expressed genes regulated by overexpression of tRF AS-tDR-007333 in A549 cells

Project description:Our previous study identified that a novel tRNA-derived fragment (tRF) termed AS-tDR-007333 was up-regulated in non-small cell lung cancer (NSCLC), but the molecular mechanisms of AS-tDR-007333 in NSCLC were unclear. Here, we used RNA-seq for high-throughput profiling of transcriptomes in A549 cells transfected with AS-tDR-007333, in order to find differentially expressed genes regulated by AS-tDR-007333.

2022-05-25 | GSE184690 | GEO

overexpression of a newly truncated FMRP isoform with 297 amino acid

Project description:RNA microarray was used to analyze the differentialy expressed genes between stably transfected HEK293T cells of the overexpression of the new FMRP isoform with 297 amino acid and stably transfected HEK293T cells of empty lentiviral vector. we constructed the lentiviral vector of exons 1-9 together with the sequence of 140bp fragment of human FMR1 gene to overexpress the truncated FMRP with 297 amino acid, and transfected cells with the void plasmid pLEX-MCS were regarded as control group.

2017-07-26 | GSE101830 | GEO

Gastrointestinal differentiation marker Cytokeratin 20 is regulated by homeobox gene CDX1

Project description:This study is to identify downstream targets of homeobox gene CDX1. The study assayed the expression of 2 pairs of stably transfected colorectal cancer cell lines: The CDX1 nonexpressing CRC cell line HCT116 was stably transfected with either CDX1 cDNA in the pRC/CMV expression vector (HCT116-CDX1) or with vector control (HCT116-Vec). The CDX1-expressing CRC cell line LS174T was similarly transfected with either a pSilencer vector containing a short sequence of CDX1 siRNA (LS174T-siRNA) , or a pSilencer vector containing a scrambled siRNA sequence as a control (LS174T-Vec).

2009-01-13 | GSE14380 | GEO

RNA-Sequencing results of EPB41-depletion PC9 cells and control cells

Project description:We aimed to detect the mRNA expression levels in stable-transfected PC9 cells after transfection with EPB41 knock-dwon or control virus.

2023-05-20 | GSE150900 | 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