Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

36 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA-seq of human breast cancer cell lines characterized by ERalpha-LBD overexpression or knockdown, compared to control cells (with or without fulvestrant treatment)

ABSTRACT: RNA-seq analysis was carried out to study the effect on transcriptome of ERalpha-LDB gain/loss-of-function in different breast cancer models. Total RNA was extracted and processed for the analysis.

INSTRUMENT(S): Illumina HiSeq 2500

ORGANISM(S): Homo sapiens

SUBMITTER: Antonio Strillacci

PROVIDER: E-MTAB-10738 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

RNA-Seq of Streptomyces venezuelae to compare global gene expression between the wild-type and BldB deletion strains after 10, 14 and 22 hours of growth.

Project description:BldB is a regulatory protein in Streptomyces and most species have a number of paralogs in their genomes. Deletion of BldB leads to a developmental deficiency and the colonies fail to produce aerial mycelium. In this experiment global gene expression was compared between the WT and BldB deletion strain of Streptomyces venezuelae NRRL B65442 after 10, 14 and 22 hours of growth in liquid cultures.

2023-04-14 | E-MTAB-12832 | biostudies-arrayexpress

RNA-Seq of Streptomyces venezuelae NRRL B65442 to compare global gene expression between the wild-type and bldB deletion strain and, wild-type and bldB plus whiJ9 double mutant after 14 hours growth in liquid medium.

Project description:Expression of iosA is greatly activated in the bldB deletion strain. whiJ9 is divergently transcribed from iosA and the double mutant (whiJ9 + bldB) was made to determine if WhiJ mediates the activation of iosA in the absence of BldB.

2023-04-14 | E-MTAB-12836 | biostudies-arrayexpress

RNA-Seq of Streptomyces venezuelae grown overnight (14 hrs) with Mitomycin-C against untreated controls.

Project description:Mitomycin C is a DNA crosslinking agent. This experiment was carried out to determine the effect of Mitomycin C on genome wide transcription in Streptomyces venezuelae NRRL B65442.

2022-07-06 | E-MTAB-11556 | biostudies-arrayexpress

The Role of SQSTM1 (P62) in Mitochondrial Function and Clearance in Human Cortical Neurons

Project description:We have assessed the importance of SQSTM1 in human induced pluripotent stem cell (iPSC)-derived cortical neurons with and without SQSTM1. By combining high-content imaging, RNA-Seq, and functional mitochondrial readouts, we showed that SQSTM1 depletion causes aberrations in mitochondrial gene expression and functionality in iPSC-derived neurons.

2021-01-18 | E-MTAB-9383 | biostudies-arrayexpress

Genome-wide analysis of ERalpha binding sites in U2OS-ERalpha cells

Project description:ChIP followed by deep sequencing was performed with antibodies to ERalpha in U2OS-ERalpha cells treated with 17beta-estradiol.

2011-05-03 | GSE28918 | GEO

Genome-wide analysis of ERalpha binding sites in U2OS-ERalpha cells

Project description:ChIP followed by deep sequencing was performed with antibodies to ERalpha in U2OS-ERalpha cells treated with 17beta-estradiol. Examination of Eralpha binding sites in U2OS-Eralpha cells. Sequenced input was used as a control

2011-05-03 | E-GEOD-28918 | biostudies-arrayexpress

RNA-seq in the basal nodes of nitrogen- and phosphorus-stressed Triticum aestivum var Cadenza (wheat) plants.

Project description:The aim of this study was to examine the transcriptional changes that govern low nitrogen (N) and low phosphorus (P) responses in basal nodes and may be associated with tiller suppression under nutrient-limiting conditions. For this purpose, RNA-seq was conducted in 18 days-old hydroponically grown wheat plants 8 days after the introduction of the plants to the nutrient limitation. The three different treatments were: Control (10 mM N, 1 mM P), Low N (0.1 mM N, 1 mM P) and Low P (10 mM N, 0.01 mM P). In total, four biological replicates were included per treatment. RNA-seq was conducted in total RNA extracted from 6 basal node samples pooled together per biological replicate. In this study, the basal node is defined as the 0.5 cm of the main shoot base, which includes the apical meristem, lateral buds, leaf meristems etc.

2023-01-17 | E-MTAB-11986 | biostudies-arrayexpress

Differential gene expression analysis by RNA-Seq for the bldC deletion strain and the wild type of Streptomyces venezuelae strain NRRL B-65442 after 10 and 14 hours of culture

Project description:The BldC gene is required for the formation of aerial hyphae in Streptomyces venezuelae. It is a 68 amino acid DNA-binding protein related to the MerR family of transcription factors. BldC deletion strains are bald because they initiate sporulation prematurely, omitting the formation of aerial hyphae altogether. This RNA-Seq experiment was carried out to determine and quantify effect of BldC on the expression of all genes in the S. venezuelae genome after 10 and 14 hours of culture.

2019-01-14 | E-MTAB-7457 | biostudies-arrayexpress

Response to estradiol-ERalpha

Project description:In addition to the estrogen responsive element (ERE)-dependent gene expression, E2-ERalpha regulates transcription through functional interactions with transfactors bound to their cognate regulatory elements on DNA, hence the ERE-independent signaling pathway. However, the relative importance of the ERE-independent pathway in E2-ERalpha signaling is unclear. Our studies in infected ER-negative cell models with an ERalpha demonstrated that genomic responses assessed by microarrays from the alter cellular growth, death or motility. Keywords: MDA-MB-231 cells

2007-12-04 | GSE9757 | GEO

Sorted tumor RNA-seq of syngeneic murine mutant IDH1 ICC tumor model treated with IDH1 inhibitor against vehicle

Project description:IDH1 is the most commonly mutated metabolic gene across human cancers, with the highest mutational frequency observed in AML, glioma, chondrosarcoma, and intrahepatic cholangiocarcinoma. Mutations of the hot spot R132 codon alter the activity of the IDH1 enzyme, resulting in the NADPH-dependent conversion of alpha-ketoglutarate to (R)-2-hydroxyglutarate [(R)-2HG], which accumulates to mM levels within tumors. (R)-2HG competitively inhibits a range of enzymes that utilize alpha-ketoglutarate. Targets include the JmjC family histone demethylases and TET family DNA demethylases whose inhibition is linked to the altered epigenetic state characteristic of many mIDH tumors. To gain insight into the mechanisms underlying the anti-tumor efficacy of inhibition of mutant IDH1 we conducted RNA-sequencing (RNA-seq) analysis of purified tumor cells. For these studies, the immune-competent 2205 subcutaneous allograft model was treated with AG120 or vehicle for 6 days and non-tumor cells were removed by magnetic bead sorting (negative selection for CD45+ immune cells, CD31+ endothelial cells, TER119+ erythrocytes, and CD90.2+ fibroblasts).

2021-11-23 | E-MTAB-11112 | biostudies-arrayexpress

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