Similar studies for GEO DataSets (Select 200267521) - GEO DataSets

Warning: The NCBI web site requires JavaScript to function. more...

Links from GEO DataSets

Items: 11

Select item 2002675211.

The MUC5B IPF risk variant promotes a distal airway secretory phenotype and loss of alveolar markers

(Submitter supplied) The dominant risk factor for the development of idiopathic pulmonary fibrosis (IPF) is a common variant in the promoter region of the airway mucin MUC5B, variant rs35705950. The MUC5B promoter variant enhances MUC5B expression in the terminal respiratory bronchiole, where it is normally absent. We pursued a spatial gene expression approach to understand how the MUC5B variant influences IPF in age-matched unaffected and IPF lung tissue specimens.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
310 Samples

Download data: DCC, TXT

Series

Accession:: GSE267521

ID:: 200267521

PubMed Similar studies

Select item 2000325392.

Molecular phenotyping of the idiopathic interstitial pneumonias identifies two Subtypes of idiopathic pulmonary fibrosis.

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

Organism:: synthetic construct; Homo sapiens

Type:: Expression profiling by array; Non-coding RNA profiling by array

Platforms:: GPL6244 GPL8786
409 Samples

Download data: CEL

Series

Accession:: GSE32539

ID:: 200032539

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000325383.

Molecular phenotyping of the idiopathic interstitial pneumonias [miRNA]

(Submitter supplied) Rationale: The fibrosing idiopathic interstitial pneumonias (IIPs) are classified based on clinical, radiographic, and pathologic criteria. The separation into phenotypic subgroups is useful in predicting outcome and therapeutic strategy; however a large degree of ambiguity remains. Gene expression profiling may contribute to traditional criteria in IIPs by characterizing the dynamic biology that more accurately distinguishes subtypes of these diseases or their prognoses. more...

Organism:: synthetic construct; Homo sapiens

Type:: Non-coding RNA profiling by array

Platform:: GPL8786
192 Samples

Download data: CEL

Series

Accession:: GSE32538

ID:: 200032538

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000325374.

Molecular phenotyping of the idiopathic interstitial pneumonias [mRNA]

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL6244
217 Samples

Download data: CEL

Series

Accession:: GSE32537

ID:: 200032537

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2001616855.

The IPF-associated variant in MUC5B, rs35705950, resides within an enhancer that is subject to lineage- and disease-dependent epigenetic remodeling

(Submitter supplied) Genetic polymorphisms account for over 30% of the risk for sporadic pulmonary fibrosis. Yet it remains unknown how the minor variant of rs35705950, the strongest driver of IPF genetic risk, mediates molecular changes to influence IPF development. In the parent publication we use chromatin immunoprecipitation, nuclease sensitivity, nascent transcript analysis, bulk RNA- and ATAC-seq from established cell lines, and finally, paired single-nucleus RNA- and ATAC-seq from IPF patients and controls to demonstrate that the variant rs35705950 resides within a classically defined enhancer of the MUC5B locus.

Organism:: Homo sapiens

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

Platforms:: GPL20301 GPL18573
8 Samples

Download data: BED, MTX, RDS, TBI, TSV

Series

Accession:: GSE161685

ID:: 200161685

PubMed Full text in PMC Similar studies

Select item 2001576916.

Gain-of-function MUC5B Promoter Variant, Strongly Linked to Idiopathic Pulmonary Fibrosis, Defines an Epigenetically Poised Enhancer

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

Organism:: Homo sapiens

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

Platforms:: GPL18573 GPL20301
24 Samples

Download data: BED, BEDGRAPH, MTX, TBI, TSV

Series

Accession:: GSE157691

ID:: 200157691

PubMed Full text in PMC Similar studies

Select item 2001576067.

Gain-of-function MUC5B Promoter Variant, Strongly Linked to Idiopathic Pulmonary Fibrosis, Defines an Epigenetically Poised Enhancer (ATAC-seq)

(Submitter supplied) The G/T transversion, rs35705950, located approximately 3 kb upstream of the MUC5B start site, is the cardinal risk factor for IPF. Here, we investigate the function and chromatin structure of this -3 kb region and provide evidence that it functions as a classically defined enhancer subject to epigenetic programming. We use nascent transcript analysis to show that RNA polymerase II loads within 10 bp of the G/T transversion site, definitively establishing enhancer function for the region. more...

Organism:: Homo sapiens

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

Platform:: GPL18573
10 Samples

Download data: BEDGRAPH

Series

Accession:: GSE157606

ID:: 200157606

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001565418.

Gain-of-function MUC5B Promoter Variant, Strongly Linked to Idiopathic Pulmonary Fibrosis, Defines an Epigenetically Poised Enhancer (PRO-seq)

Organism:: Homo sapiens

Type:: Other

Platform:: GPL18573
6 Samples

Download data: BEDGRAPH

Series

Accession:: GSE156541

ID:: 200156541

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

Select item 2001754599.

Functional Validation of Common Idiopathic Pulmonary Fibrosis Genetic Risk Variants

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

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Methylation profiling by genome tiling array

Platforms:: GPL21145 GPL24676
969 Samples

Download data: IDAT

Series

Accession:: GSE175459

ID:: 200175459

PubMed Full text in PMC Similar studies

Select item 20017545810.

Functional Validation of Common Idiopathic Pulmonary Fibrosis Genetic Risk Variants [850k methylation arrays]

(Submitter supplied) Rationale: To identify functionally relevant common genetic risk variants associated with idiopathic pulmonary fibrosis (IPF), we performed expression quantitative trait loci (eQTL) and methylation quantitative trait loci (mQTL) mapping, followed by co-localization of eQTL and mQTL with genetic association signals as well as mediation analysis. Methods: Illumina MEGA genotyping arrays, mRNA sequencing, and Illumina 850k methylation arrays were performed on lung tissue of participants with IPF (234 RNA and 345 DNA samples) and non-diseased control (188 RNA and 202 DNA samples). more...