Similar studies for GEO DataSets (Select 200229049) - GEO DataSets

Links from GEO DataSets

Items: 20

Select item 2002290491.

Pioneer factor Foxa2 mediates chromatin conformation changes in ligand-dependent activation of nuclear receptor FXR

(Submitter supplied) Activation of nuclear receptors, a family of ligand-dependent transcription factors, is used extensively in development of drug targets. We have previously shown that pioneer factor Foxa2 opens chromatin for binding of nuclear receptors FXR and LXRα during acute ligand activation. FXR is activated by bile acids and deletion of Foxa2 in the liver results in intrahepatic cholestasis. We hypothesized that Foxa2 also enables chromatin conformational changes during ligand activation. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing; Other

Platform:: GPL30172
2 Samples

Download data: BED, TXT

Series

Accession:: GSE229049

ID:: 200229049

PubMed Full text in PMC Similar studies

Select item 2001490752.

Pioneer factor Foxa2 enables ligand-dependent activation of type II nuclear receptors FXR and LXRa

(Submitter supplied) Type II nuclear hormone receptors, such as FXR, LXR, and PPAR, which function in glucose and lipid metabolism and serve as drug targets for metabolic diseases, are permanently positioned in the nucleus regardless of the ligand status. Ligand activation of these receptors is thought to occur by co-repressor/co-activator exchange, followed by initiation of transcription. However, recent genome-wide location analysis showed that LXRα and PPARα binding in the liver is largely ligand-dependent. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL19057 GPL30172
106 Samples

Download data: BED

Series

Accession:: GSE149075

ID:: 200149075

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001135753.

The nuclear Bile Acid Receptor FXR is a PKA- and FOXA2- sensitive Activator of Fasting Hepatic Gluconeogenesis

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL16570
32 Samples

Download data: CEL

Series

Accession:: GSE113575

ID:: 200113575

Select item 2001135494.

The nuclear Bile Acid Receptor FXR is a PKA- and FOXA2- sensitive Activator of Fasting Hepatic Gluconeogenesis [modulated FOXA2/FXR]

(Submitter supplied) Identified genes deregulated in mouse primary hepatocytes after modulation of expression/activity of FOXA2 and FXR in glucagon or insulin state

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL16570
24 Samples

Download data: CEL

Series

Accession:: GSE113549

ID:: 200113549

Select item 2001135265.

The nuclear Bile Acid Receptor FXR is a PKA- and FOXA2- sensitive Activator of Fasting Hepatic Gluconeogenesis [glucacon/GW4064]

(Submitter supplied) Identified genes deregulated in mouse primary hepatocytes after glucagon and /or GW4064 treatment

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL16570
8 Samples

Download data: CEL

Series

Accession:: GSE113526

ID:: 200113526

Select item 2000142116.

Expression profiling of Noto-GFP+ notochord progenitor cells sorted from E8.5 mouse embryos

(Submitter supplied) Using a combination of cell sorting and microarray analysis, we identified almost 200 genes as having a high level of expression in the notochord. After whole mount in situ hybridization screening, we confirmed approximately one third of these as having a novel notochord expression pattern. Keywords: cell type comparison - embryonic Noto-GFP+ notochord progenitors versus surrounding GFP- comparator cells

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL1261
6 Samples

Download data: CEL, CHP

Series

Accession:: GSE14211

ID:: 200014211

Select item 2000573127.

ChIP-seq and RNA-seq study of human FXR in primary human hepatocytes and microarray analysis of GW4064 versus vehicle treated wild type mouse livers

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Homo sapiens; Mus musculus

Type:: Expression profiling by array; Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL8321 GPL11154
12 Samples

Download data: CEL, CHP

Series

Accession:: GSE57312

ID:: 200057312

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000573058.

Altered mRNA expression profile of GW4064 treated mouse livers compared to vehicle control

(Submitter supplied) Farnesoid X receptor (FXR) is a ligand activated nuclear receptor belonging to the nuclear receptor superfamily. Bile acids (BAs) are the endogenous ligand for FXR. FXR is a master regulator of BA homestasis, including BA synthesis, metabolism, transport, and enterohepatic circulation of BAs. Besides, FXR is involved in regulating diverse physioligical function in both humans and mice. GW4064 is a synthetic FXR agonist which selectively activates FXR and induce the transcription of FXR target genes.

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL8321
6 Samples

Download data: CEL, CHP, TXT

Series

Accession:: GSE57305

ID:: 200057305

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000572279.

Genome wide binding and transcriptome analysis of human FXR in primary human hepatocytes [HTS]

(Submitter supplied) We report the genome-wide profiling of FXR binding by ChIP-seq from GW4064 or DMSO treated primary human hepatocytes. We reported altered RNA expression profiles in primary human hepatocypes upon GW4064 treatment compared to DMSO control by RNA-seq. We also reported the altered RNA expression profiles in livers from WT C57BL/6J mice upon GW4064 treatment compared to vehicle control.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL11154
6 Samples

Download data: BEDGRAPH, DIFF, FPKM_TRACKING

Series

Accession:: GSE57227

ID:: 200057227

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 20005455710.

Transcription profiling of liver from farnesoid X receptor knockout mice

(Submitter supplied) Expression profiling of whole body (WB) FXR knockout (KO) mice (FXR WB KO), liver-specific FXR KO mice (AFXR Cre+) and enterocyte specific FXR KO mice (VFXR Cre+) on a C57BL/6J genetic background

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL8321
18 Samples

Download data: CEL

Series

Accession:: GSE54557

ID:: 200054557

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20006345711.

Fxr-deficiency in mouse liver slices aggravates cyclosporin A toxicity by upregulation of pro-inflammatory genes and downregulation of genes involved in mitochondrial functions

(Submitter supplied) The transcription factor farnesoid X receptor (FXR) governs bile acid and energy homeostasis, is involved in inflammation, and has protective functions in the liver. In the present study we investigated the effect of Fxr deficiency in mouse precision cut liver slices (PCLS) exposed to a model hepatotoxicant cyclosporin A (CsA). It was anticipated that Fxr deficiency could aggravate toxicity of CsA in PCLS and pinpoint to novel genes/processes regulated by FXR. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL19143
20 Samples

Download data: CEL

Series

Accession:: GSE63457

ID:: 200063457

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20007817712.

Changes at the nuclear lamina alter binding of pioneer factor Foxa2 in aged liver.

(Submitter supplied) Increasing evidence suggests that regulation of heterochromatin at the nuclear envelope underlies metabolic disease susceptibility and age-dependent metabolic changes, but the mechanism is unknown. Here we profile lamina-associated domains (LADs) using lamin B1 ChIP-Seq in young and old hepatocytes and find that, although lamin B1 resides at a large fraction of domains at both ages, a third of lamin B1-associated regions are bound exclusively at each age in vivo. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17021
18 Samples

Download data: BED

Series

Accession:: GSE78177

ID:: 200078177

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20000380913.

Gene expression profiling of livers from cafestol-fed APOE3Leiden mice

(Submitter supplied) Unfiltered coffee markedly increases serum lipid levels in humans and mice. The responsible compounds are the fat-soluble diterpenes cafestol and kahweol. Cafestol is responsible for more than 80% of the effect on serum lipids and is the most potent cholesterol-elevating compound known in the human diet. Aim of these microarray studies was to identify novel genes and regulatory pathways determining the cholesterol raising effect of cafestol by genome-wide expression studies. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL3239
16 Samples

Download data

Series

Accession:: GSE3809

ID:: 200003809

Select item 20019739914.

Redistribution of lamina-associated domains reshapes Foxa2 binding in development of NAFLD

(Submitter supplied) Non-alcoholic fatty liver disease (NAFLD) is highly prevalent in type 2 diabetes mellitus and the elderly, impacting 40% of individuals over 70. Regulation of heterochromatin at the nuclear lamina has been associated with aging and age-dependent metabolic changes. We have shown that changes at the lamina in aged hepatocytes and laminopathy models lead to redistribution of lamina-associated domains (LADs), opening of repressed chromatin, and upregulation of genes regulating lipid synthesis and storage, culminating in fatty liver. more...

Organism:: Mus musculus; Homo sapiens

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL19057 GPL18573
61 Samples

Download data: BED, TXT

Series

Accession:: GSE197399

ID:: 200197399

PubMed Full text in PMC Similar studies

Select item 20013373415.

FXR isoform selective transcriptional activation in mouse liver organoids

(Submitter supplied) The farnesoid X receptor (FXR) is a nuclear receptor activated by bile acids that regulates metabolic processes. FXR is expressed as four isoforms (α1-4), and their relative abundance is specific to tissue and bio-energetic conditions (Correia JC et al. 2015). Depending on the FXR isoform expressed, there is a degree of selectivity in target-genes activation. In this dataset, we defined FXR-isoforms selective effects on transcription in mouse liver organoids after treatment with the FXR agonist Obeticholic acid(OCA). more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL19057
30 Samples

Download data: DIFF, TXT

Series

Accession:: GSE133734

ID:: 200133734

PubMed Similar studies SRA Run Selector

Select item 20013370016.

FXR isoform selective DNA binding in mouse liver organoids

(Submitter supplied) The farnesoid X receptor (FXR) is a nuclear receptor activated by bile acids that regulates metabolic processes. FXR is expressed as four isoforms (α1-4), and their relative abundance is specific to tissue and bio-energetic conditions (Correia JC et al. 2015). Depending on the FXR isoform expressed, there is a degree of selectivity in target-genes activation. However, there is currently no data on how isoform-linked target selectivity is achieved. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL19057
10 Samples

Download data: BED, BW

Series

Accession:: GSE133700

ID:: 200133700

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20013365917.

FXR isoform selective effects on hepatoma cell line HepG2

(Submitter supplied) The farnesoid X receptor (FXR) is a nuclear receptor activated by bile acids that regulates bile acid metabolism, glucose and cholesterol homeostasis. FXR is expressed as four isoforms (α1-4), and their relative abundance is tissue specific. Human livers express predominantly FXR isoforms α1 and α2. From mouse studies we know that the FXR agonist obeticholic acid (OCA) regulates expression of many genes in the liver. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL18573
18 Samples

Download data: BW

Series

Accession:: GSE133659

ID:: 200133659

Select item 20015685618.

Coagulopathy in Malnourished Mice is Sexually Dimorphic and Regulated by Nutrient-sensing Nuclear Receptors

(Submitter supplied) Liver dysfunction including coagulopathy is a prominent feature of proteinenergy malnutrition. To identify mechanisms underlying malnutrition-associated coagulopathy, we administered low-protein low-fat diet to lactating dams and examined hepatic transcription and plasma coagulation parameters in young adult weanlings. Malnutrition impairs growth and liver synthetic function more severely in males versus females. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17021
19 Samples

Download data: TXT

Series

Accession:: GSE156856

ID:: 200156856

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20006039319.

Changes in nucleosome occupancy associated with metabolic alterations in aged mammalian liver [ChIP-seq]

(Submitter supplied) Aging is accompanied by physiological impairments, which, in insulin-responsive tissues, including the liver, predispose individuals to metabolic disease. However, the molecular mechanisms underlying these changes remain largely unknown. Here, we analyze genome-wide profiles of RNA and chromatin organization in the liver of young (3 months) and old (21 months) mice. Transcriptional changes suggest that de-repression of the nuclear receptors PPARα, PPARγ, and LXRα in aged mouse liver leads to activation of targets regulating lipid synthesis and storage, whereas age-dependent changes in nucleosome occupancy are associated with binding sites for both known regulators (forkhead factors and nuclear receptors) and for novel candidates associated with nuclear lamina (Hdac3 and Srf) implicated to govern metabolic function of aging liver. more...