Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

E-GEOD-48163

ABSTRACT: HEK293T cells were transfected with the Rbp1-amr or slow (R729H-amr) Î±-amanitin resistant subunit of RNA Pol II and selected with Î±-amanitin 24 hours after transfection for additional 24 hours

OTHER RELATED OMICS DATASETS IN: PRJNA209068

PROVIDER: E-GEOD-48163 | ExpressionAtlas | 2015-07-17

REPOSITORIES: ExpressionAtlas

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	E-GEOD-48163-analysis-methods.tsv	Tabular
	E-GEOD-48163-atlasExperimentSummary.Rdata	Rdata
	E-GEOD-48163-configuration.xml	Xml
	E-GEOD-48163-percentile-ranks.tsv	Tabular
	E-GEOD-48163.condensed-sdrf.tsv	Tabular

Items per page:

1 - 5 of 53

Similar Datasets

HEK293T cells were transfected with the Rbp1-amr or slow (R729H-amr) Î±-amanitin resistant subunit of RNA Pol II and selected with Î±-amanitin 24 hours after transfection for additional 24 hours

Project description:HEK293T cells were transfected with the Rbp1-amr or slow (R729H-amr) Î±-amanitin resistant subunit of RNA Pol II and selected with Î±-amanitin 24 hours after transfection for additional 24 hours. Total RNA was extracted and global changes in gene expression were determined using microarray chips. MiRNAs are transcribed by RNA pol II but the transcriptional features influencing their synthesis are poorly defined. Here we report that a TATA-box in miRNA and a subset of protein-coding genes is associated with increased sensitivity to a slow rate of transcription elongation. We also show that promoters driven by TATA-box or NF-ÎºB elicit high transcription re-initiation rate, but paradoxically lower levels of miRNA. Interestingly, miRNA synthesis was converted to a more productive mode by decreasing initiation rate, but less productive when the re-initiation rate increased. This phenomenon was found to be associated with a delay in miR-146a induction by NF-ÎºB. We also demonstrate that miRNAs are remarkably strong pause sites. Our findings suggest that lower efficiency of miRNA synthesis directed by the TATA-box or NF-ÎºB is a consequence of frequent transcription initiation that lead to Pol II crowding at pause sites, thereby increasing the chance of collision and premature termination. These findings highlight the importance of the transcription initiation mechanism for miRNA synthesis, and have implications for TATA-box promoters in general. HEK293T cells were transfected with plasmids directing the expression of Î±-amanitin-resistant variants of Pol II (Rpb1-amr and R749H-amr). Î±-amanitin was added and RNA was prepared 24 and 48 h later, respectively. The data provided is from 3 Rpb1-amr vs 3 R749H-amr (6 samples).

2013-07-01 | E-GEOD-48163 | biostudies-arrayexpress

Homo sapiens

| PRJNA209068 | ENA

HEK293T cells were transfected with the Rbp1-amr or slow (R729H-amr) α-amanitin resistant subunit of RNA Pol II and selected with α-amanitin 24 hours after transfection for additional 24 hours

Project description:HEK293T cells were transfected with the Rbp1-amr or slow (R729H-amr) α-amanitin resistant subunit of RNA Pol II and selected with α-amanitin 24 hours after transfection for additional 24 hours. Total RNA was extracted and global changes in gene expression were determined using microarray chips. MiRNAs are transcribed by RNA pol II but the transcriptional features influencing their synthesis are poorly defined. Here we report that a TATA-box in miRNA and a subset of protein-coding genes is associated with increased sensitivity to a slow rate of transcription elongation. We also show that promoters driven by TATA-box or NF-κB elicit high transcription re-initiation rate, but paradoxically lower levels of miRNA. Interestingly, miRNA synthesis was converted to a more productive mode by decreasing initiation rate, but less productive when the re-initiation rate increased. This phenomenon was found to be associated with a delay in miR-146a induction by NF-κB. We also demonstrate that miRNAs are remarkably strong pause sites. Our findings suggest that lower efficiency of miRNA synthesis directed by the TATA-box or NF-κB is a consequence of frequent transcription initiation that lead to Pol II crowding at pause sites, thereby increasing the chance of collision and premature termination. These findings highlight the importance of the transcription initiation mechanism for miRNA synthesis, and have implications for TATA-box promoters in general.

2013-07-01 | GSE48163 | GEO

Response of quiescent human fibroblasts to miR-22 overexpression

Project description:Quiescent human fibroblasts (2091) were transfected with 100nM mature miR-22 RNA duplexes. Cells were collected 24 hours after miR-22 transfection.

2012-12-07 | GSE42788 | GEO

Transciptome analysis of human aortic smooth muscle cells (HASMCs) with BAF60c knockdown

Project description:HASMCs were transfected with BAF60c siRNA (siBAF60c, 20um) or control siRNA (siControl) for 48 hours, and serum-starved for 24 hours , followed by RNA-sequencing

2022-09-23 | GSE180584 | GEO

RNA-seq analysis of mouse bone marrow-derived macrophages overexpressing miR-204-3p

Project description:Bone marrow-derived macrophages were transfected with miRNA-204-3p mimics or mimics negative control for 24 hours. RNA-seq was performed to compare miR-204-3p overexpression versus control cells.

2023-03-01 | GSE223129 | GEO

Gene expression changes upon expression of activated versions of MEK1 and HRAS in MCF10A cells

Project description:MCF10A cells were then transfected with MEK1(S217S221), HRAS(G12V), and null control vectors Cells were lysed 24 hours post-transfection with collection of total RNA and protein Keywords: Oncogene inducation of gene expression changes

2009-01-12 | GSE12764 | GEO

An ERK5-KLF2 signalling module regulates early embryonic gene expression dynamics and stem cell rejuvenation

Project description:CCE mESCs were transfected with either empty pCAGGS vector or HA-MEK5DD (S311D T315D) construct for 48 hours. 24 hours prior to lysis, mESCs were either treated with 10uM AX15836 or DMSO control, and transfected mESCs selected with puromycin. Conditions were performed in triplicate.

2021-03-18 | PXD024679 | Pride

Infection of macrophages by Toxoplasma Progeny from a Type II x Type III cross

Project description:Infection of RAW264.7 cells for 24 hours with 32 Toxoplasma Progeny from a Type II x Type III cross To measure changes in gene expression induced in macropahges upon Toxoplasma infection, we infected RAW 264.7 macrophages in cell culture with one of 32 Toxoplasma parasite progeny from a Type II x Type III cross. RNA was harvested 24 hours post infection.

2014-06-01 | GSE56534 | GEO

Next-generation sequencing facilitates transcriptomes quantitative analysis of stably expressing RfxCas13d HEK293T cells transfected with target genes and corresponding crRNAs

Project description:To determine what effect the collateral activity of RfxCas13d has on cells, a HEK293T cell line stably expressing RfxCas13d (HEK293T-RfxCas13d) was constructed and then transfected with plasmids encoding target gene and corresponding crRNAs. After 24 hours of transfection, cells were collected and extracted for total RNA. Then, we performed RNA-seq to compare the differentially expressed genes between cells transfected with targeting crRNAs and non-targeting crRNA.

2022-02-10 | GSE193667 | 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