Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA half-life analysis after transcriptional blocking with actinomycin D

ABSTRACT: Transcriptional profiling of HeLa cells treated with actinomycin D for increasing amounts of time. Relative abundance to control cells was used to estimate the half-life of lncRNAs.

ORGANISM(S): Homo sapiens

PROVIDER: GSE62963 | GEO | 2015/06/30

SECONDARY ACCESSION(S): PRJNA266348

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

RNA half-life analysis after transcriptional blocking with actinomycin D

Project description:Transcriptional profiling of HeLa cells treated with actinomycin D for increasing amounts of time. Relative abundance to control cells was used to estimate the half-life of lncRNAs. Two-condition experiment, actinomycin D-treated vs. untreatted HeLa cells. Biological replicates: 2. Technical replicates: 2.

2015-06-30 | E-GEOD-62963 | biostudies-arrayexpress

Expression data from NIH-3T3 cells used for half-life determination

Project description:Data from tc-, nt- and p-RNA as well as 1 and 2h of actinomycin-D treatment (5µg/ml) of NIH-3T3 cells used to determine half-lives. RNA was labeled for 15, 30 or 60 minutes with 4-thiouridine. After preparation of tc-RNA, thiol-labeled RNA was biotinylated using biot-HPDP and subsequently tc-RNA was separated into nt- and p-RNA using streptavidin coated magnetic beads. All three fractions were used for microarray analysis. For actinomycin-D experiments only tc-RNA was used prepared from cell before and 1 an 2h after addition of act-D. We used microarrays to analyze the effects of 1 and 3h of IFNalpha and gamma treatment in total cellular RNA Keywords: determination of RNA half-lives in NIH-3T3

2009-09-30 | GSE10011 | GEO

Transcription profiling of mouse NIH-3T3 cells for tc-, nt- and p-RNA half-life determination

Project description:Data from tc-, nt- and p-RNA as well as 1 and 2h of actinomycin-D treatment (5Âµg/ml) of NIH-3T3 cells used to determine half-lives. RNA was labeled for 15, 30 or 60 minutes with 4-thiouridine. After preparation of tc-RNA, thiol-labeled RNA was biotinylated using biot-HPDP and subsequently tc-RNA was separated into nt- and p-RNA using streptavidin coated magnetic beads. All three fractions were used for microarray analysis. For actinomycin-D experiments only tc-RNA was used prepared from cell before and 1 an 2h after addition of act-D. We used microarrays to analyze the effects of 1 and 3h of IFNalpha and gamma treatment in total cellular RNA Experiment Overall Design: NIH-3T3 cells ( 5th to 15th passage after thawing) were split from confluent plates 24h before start of the experiment. At the begin of the experiment about 80% confluency was reached. The experiment was started by applying fresh, prewarmed, CO2-equilibrated medium containing either 200ÂµM 4sU (for 1h labeling), 500ÂµM 4sU (for <=30min labeling) or 5Âµg/ml actinomycin-D.

2009-10-20 | E-GEOD-10011 | biostudies-arrayexpress

Determination of mRNA half-lives in embryonic mouse skin

Project description:Embryonic mouse skin samples were halved, one half separated into epidermis and dermis and RNA isolated, and the other half immersed in medium containing Actinomycin D (Act D) to halt transcription. After 30, 60 or 120 minutes at 37 degrees C the Actinomycin D treated samples were separated into epidermis and dermis and RNA isolated from these. Resulting RNA samples were sequenced to quantify transcript abundances.

2017-07-14 | E-MTAB-5841 | biostudies-arrayexpress

Cell cycle mRNA half-life profiling.

Project description:Cell cycle mRNA half-life profiling.

| PRJNA950409 | ENA

RNAseq of isolated mitotic HeLa cells treated with Actinomycin D

Project description:RNAseq of isolated mitotic HeLa cells treated with Actinomycin D

| PRJEB27865 | ENA

Cell cycle mRNA half-life profiling.

Project description:mRNA half-life profiling in the bacterium Caulobacter crescentus was performed in synchronized cells collected from different stages of the cell cycle including swarmer cells, stalk cells (45 min post synchrony), and predivisional cells (90 min post synchrony). For each cell population, transcription was disrupted by the antibiotic rifampicin, and RNA samples were collected at different time points to measure the mRNA half-lives.

2023-04-03 | GSE228593 | GEO

BR-body mutant mRNA half-life profiling.

Project description:BR-body mutant mRNA half-life profiling.

| PRJNA551694 | ENA

Half-life determination for human B-cells (BL41)

Project description:RNA was labeled in BL41 cells by culturing cells for 60 min in media containing 100µM 4sU. Tc-RNA was separated into nt- and p-RNA. All three RNA subsets were subjected to microarray analysis. Only probe sets providing present calls in all RNA samples/subsets were included into the analysis We used microarrays to determine half-lives of mRNAs expressed in BL41 cells Keywords: Determination of mRNA half-life in human B-cells

2009-09-30 | GSE9973 | GEO

Proteasome inhibition sensitizes anaplastic Wilms tumor to actinomycin D

Project description:Wilms tumor is the most common kidney cancer in children, and anaplastic Wilms tumor is the most chemoresistant histological subtype. Here we explore how anaplastic Wilms tumor cells evade the common chemotherapeutic drug actinomycin D, which inhibits ribosomal biogenesis. We found that, when ribosomal capacity is limited by actinomycin D treatment, anaplastic Wilms tumor cells preferentially translate proteasome components and upregulate proteasome activity. Accordingly, increased proteasome levels are associated with anaplastic histology and with worse prognosis in Wilms tumor. Lastly, we show that the proteasome inhibitor bortezomib sensitizes cells to actinomycin D treatment both in vitro and in vivo.

2024-06-20 | GSE270330 | 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