Similar studies for GEO DataSets (Select 200171066) - GEO DataSets

Select item 2001710661.

Epigenetic therapy suppresses tumour growth by rewiring ER-mediated long-range chromatin interactions in ER+ endocrine-resistant breast cancer [methylation GAR15-13]

(Submitter supplied) Here we investigate the impact of epigenetic therapy with Decitabine in endocrine-resistant ER+ breast cancer by using patient-derived xenograft (PDX) models. Decitabine treatment restrained tumour growth, inhibited cell proliferation and resulted in significant loss of DNA methylation, particularly at enhancers and repetitive elements. Systematic integration of matched in situ Hi-C / PCHi-C, EPIC, RNA-seq and ChIP–seq datasets revealed widespread differences in epigenome regulation and enhancer-promoter communication with Decitabine. more...

Organism:: Homo sapiens

Type:: Methylation profiling by array

Platform:: GPL21145
8 Samples

Download data: IDAT, TSV

Series

Accession:: GSE171066

ID:: 200171066

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2002404822.

Characterisation and reproducibility of the HumanMethylationEPIC v2.0 BeadChip for DNAmethylation profiling

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

Organism:: Homo sapiens

Type:: Methylation profiling by array; Methylation profiling by high throughput sequencing

Platforms:: GPL21145 GPL33022 GPL20795
64 Samples

Download data: IDAT

Series

Accession:: GSE240482

ID:: 200240482

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2002404813.

Characterisation and reproducibility of the HumanMethylationEPIC v2.0 BeadChip for DNA methylation profiling [WGBS]

(Submitter supplied) Genome wide DNA methylation profiling of a suite of biological samples for technical evaluation of the HumanMethylationEPIC v2.0 BeadChip. Samples include prostate (LNCaP, PrEC) and breast cancer (MCF7, TAMR) cell lines, as well as primary tumour samples from prostate (SYN*) and breast (FD*).

Organism:: Homo sapiens

Type:: Methylation profiling by high throughput sequencing

Platform:: GPL20795
6 Samples

Download data: TSV

Series

Accession:: GSE240481

ID:: 200240481

PubMed Full text in PMC Similar studies

Select item 2002404694.

Characterisation and reproducibility of theHumanMethylationEPIC v2.0 BeadChip for DNAmethylation profiling [EPIC v2]

(Submitter supplied) Genome wide DNA methylation profiling of a suite of biological samples for technical evaluation of the HumanMethylationEPIC v2.0 BeadChip. Samples include prostate (LNCaP, PrEC) and breast cancer (MCF7, TAMR) cell lines, as well as primary tumour samples from prostate (SYN*) and breast (HCI*|Gar*).

Organism:: Homo sapiens

Type:: Methylation profiling by array

Platform:: GPL33022
40 Samples

Download data: CSV, IDAT

Series

Accession:: GSE240469

ID:: 200240469

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2002404125.

Characterisation and reproducibility of the HumanMethylationEPIC v2.0 BeadChip for DNAmethylation profiling [EPIC v1]

(Submitter supplied) Genome wide DNA methylation profiling of a suite of biological samples for technical evaluation of the HumanMethylationEPIC v2.0 BeadChip. Samples include prostate (LNCaP, PrEC) and breast cancer (MCF7, TAMR) cell lines, as well as primary tumour samples from prostate (SYN*) and breast (HCI*|Gar*).

Organism:: Homo sapiens

Type:: Methylation profiling by array

Platform:: GPL21145
18 Samples

Download data: CSV, IDAT

Series

Accession:: GSE240412

ID:: 200240412

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Select item 2002377696.

Epigenetic therapy targets the 3D epigenome in endocrine-resistant breast cancer [CUT&RUN]

(Submitter supplied) Here we investigate the impact of epigenetic therapy with Decitabine in endocrine-resistant ER+ breast cancer by using patient-derived xenograft (PDX) models. Decitabine treatment restrained tumour growth, inhibited cell proliferation and resulted in significant loss of DNA methylation, particularly at enhancers and repetitive elements. Systematic integration of matched in situ Hi-C / PCHi-C, EPIC, RNA-seq and ChIP–seq datasets revealed widespread differences in epigenome regulation and enhancer-promoter communication with Decitabine. more...

Organism:: Homo sapiens

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

Platform:: GPL18573
13 Samples

Download data: BED

Series

Accession:: GSE237769

ID:: 200237769

PubMed Full text in PMC Similar studies

Select item 2002377687.

Epigenetic therapy targets the 3D epigenome in endocrine-resistant breast cancer [WGBS]

(Submitter supplied) Here we investigate the impact of epigenetic therapy with Decitabine in endocrine-resistant ER+ breast cancer by using patient-derived xenograft (PDX) models. Decitabine treatment restrained tumour growth, inhibited cell proliferation and resulted in significant loss of DNA methylation, particularly at enhancers and repetitive elements. Systematic integration of matched in situ Hi-C / PCHi-C, EPIC, RNA-seq and ChIP–seq datasets revealed widespread differences in epigenome regulation and enhancer-promoter communication with Decitabine. more...

Organism:: Homo sapiens

Type:: Methylation profiling by high throughput sequencing

Platform:: GPL24676
8 Samples

Download data: BW

Series

Accession:: GSE237768

ID:: 200237768

PubMed Full text in PMC Similar studies

Select item 2002169898.

Decitabine treatment reveals a functional role of DNA hypomethylation in organising enhancer-promoter interactions

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

Organism:: Homo sapiens

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

Platforms:: GPL24676 GPL21145
24 Samples

Download data: IDAT, TXT

Series

Accession:: GSE216989

ID:: 200216989

PubMed Full text in PMC Similar studies

Select item 2002169889.

Decitabine treatment reveals a functional role of DNA hypomethylation in organising enhancer-promoter interactions [RNA-seq]

(Submitter supplied) DNA methylation is one of the most important epigenetic marks and changes in DNA methylation patterns have been associated with many different types of cancer. Recently, three-dimensional (3D) genome organisation has been demonstrated to play a fundamental role in gene regulation. Determining the interplay between DNA methylation and 3D chromatin structure and function is challenging due to the extreme complexity of epigenetic regulation. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
8 Samples

Download data: CSV

Series

Accession:: GSE216988

ID:: 200216988

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Select item 20021698710.

Decitabine treatment reveals a functional role of DNA hypomethylation in organising enhancer-promoter interactions [Promoter Capture Hi-C]

(Submitter supplied) DNA methylation is one of the most important epigenetic marks and changes in DNA methylation patterns have been associated with many different types of cancer. Recently, three-dimensional (3D) genome organisation has been demonstrated to play a fundamental role in gene regulation. Determining the interplay between DNA methylation and 3D chromatin structure and function is challenging due to the extreme complexity of epigenetic regulation. more...

Organism:: Homo sapiens

Type:: Other

Platform:: GPL24676
8 Samples

Download data: TXT

Series

Accession:: GSE216987

ID:: 200216987

PubMed Full text in PMC Similar studies

Select item 20021698611.

Decitabine treatment reveals a functional role of DNA hypomethylation in organising enhancer-promoter interactions [EPIC]

(Submitter supplied) DNA methylation is one of the most important epigenetic marks and changes in DNA methylation patterns have been associated with many different types of cancer. Recently, three-dimensional (3D) genome organisation has been demonstrated to play a fundamental role in gene regulation. Determining the interplay between DNA methylation and 3D chromatin structure and function is challenging due to the extreme complexity of epigenetic regulation. more...

Organism:: Homo sapiens

Type:: Methylation profiling by genome tiling array

Platform:: GPL21145
8 Samples

Download data: IDAT, TSV

Series

Accession:: GSE216986

ID:: 200216986

PubMed Full text in PMC Similar studies

Select item 20017107412.

The potential of epigenetic therapy to target the 3D epigenome in endocrine-resistant breast cancer

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

Organism:: Homo sapiens

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

4 related Platforms
88 Samples

Download data: BED, BW, HIC, IDAT, NARROWPEAK, TXT

Series

Accession:: GSE171074

ID:: 200171074

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20017107313.

Epigenetic therapy suppresses tumour growth by rewiring ER-mediated long-range chromatin interactions in ER+ endocrine-resistant breast cancer [RNA-seq]

(Submitter supplied) Here we investigate the impact of epigenetic therapy with Decitabine in endocrine-resistant ER+ breast cancer by using patient-derived xenograft (PDX) models. Decitabine treatment restrained tumour growth, inhibited cell proliferation and resulted in significant loss of DNA methylation, particularly at enhancers and repetitive elements. Systematic integration of matched in situ Hi-C / PCHi-C, EPIC, RNA-seq and ChIP–seq datasets revealed widespread differences in epigenome regulation and enhancer-promoter communication with Decitabine. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
16 Samples

Download data: TXT

Series

Accession:: GSE171073

ID:: 200171073

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

Select item 20017107214.

Epigenetic therapy suppresses tumour growth by rewiring ER-mediated long-range chromatin interactions in ER+ endocrine-resistant breast cancer [PCHiC]

(Submitter supplied) Here we investigate the impact of epigenetic therapy with Decitabine in endocrine-resistant ER+ breast cancer by using patient-derived xenograft (PDX) models. Decitabine treatment restrained tumour growth, inhibited cell proliferation and resulted in significant loss of DNA methylation, particularly at enhancers and repetitive elements. Systematic integration of matched in situ Hi-C / PCHi-C, EPIC, RNA-seq and ChIP–seq datasets revealed widespread differences in epigenome regulation and enhancer-promoter communication with Decitabine. more...

Organism:: Homo sapiens

Type:: Other

Platform:: GPL20795
6 Samples

Download data: TXT

Series

Accession:: GSE171072

ID:: 200171072

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20017107115.

Epigenetic therapy suppresses tumour growth by rewiring ER-mediated long-range chromatin interactions in ER+ endocrine-resistant breast cancer [HiC]

(Submitter supplied) Here we investigate the impact of epigenetic therapy with Decitabine in endocrine-resistant ER+ breast cancer by using patient-derived xenograft (PDX) models. Decitabine treatment restrained tumour growth, inhibited cell proliferation and resulted in significant loss of DNA methylation, particularly at enhancers and repetitive elements. Systematic integration of matched in situ Hi-C / PCHi-C, EPIC, RNA-seq and ChIP–seq datasets revealed widespread differences in epigenome regulation and enhancer-promoter communication with Decitabine. more...

Organism:: Homo sapiens

Type:: Other

Platform:: GPL20795
6 Samples

Download data: HIC, TXT

Series

Accession:: GSE171071

ID:: 200171071

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20017107016.

Epigenetic therapy suppresses tumour growth by rewiring ER-mediated long-range chromatin interactions in ER+ endocrine-resistant breast cancer [ChIP-seq]

(Submitter supplied) Here we investigate the impact of epigenetic therapy with Decitabine in endocrine-resistant ER+ breast cancer by using patient-derived xenograft (PDX) models. Decitabine treatment restrained tumour growth, inhibited cell proliferation and resulted in significant loss of DNA methylation, particularly at enhancers and repetitive elements. Systematic integration of matched in situ Hi-C / PCHi-C, EPIC, RNA-seq and ChIP–seq datasets revealed widespread differences in epigenome regulation and enhancer-promoter communication with Decitabine. more...

Organism:: Homo sapiens

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

Platform:: GPL18573
23 Samples

Download data: NARROWPEAK

Series

Accession:: GSE171070

ID:: 200171070

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20017106917.

Epigenetic therapy suppresses tumour growth by rewiring ER-mediated long-range chromatin interactions in ER+ endocrine-resistant breast cancer [methylation HCI-005]

(Submitter supplied) Here we investigate the impact of epigenetic therapy with Decitabine in endocrine-resistant ER+ breast cancer by using patient-derived xenograft (PDX) models. Decitabine treatment restrained tumour growth, inhibited cell proliferation and resulted in significant loss of DNA methylation, particularly at enhancers and repetitive elements. Systematic integration of matched in situ Hi-C / PCHi-C, EPIC, RNA-seq and ChIP–seq datasets revealed widespread differences in epigenome regulation and enhancer-promoter communication with Decitabine. more...

Organism:: Homo sapiens

Type:: Methylation profiling by array

Platform:: GPL21145
8 Samples

Download data: IDAT, TSV

Series

Accession:: GSE171069

ID:: 200171069

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20011871618.

Epigenetic reprogramming at estrogen-receptor binding sites alters 3D chromatin landscape in endocrine resistant breast cancer

(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; Methylation profiling by high throughput sequencing

Platforms:: GPL16791 GPL11154 GPL20795
40 Samples

Download data: BB, BW, HIC, TXT, VCF

Series

Accession:: GSE118716

ID:: 200118716

PubMed Full text in PMC Similar studies

Select item 20011871419.

Epigenetic reprogramming at estrogen-receptor binding sites alters the 3D chromatin landscape in endocrine resistant breast cancer [WGBS]

(Submitter supplied) Endocrine therapy resistance invariably develops in estrogen receptor positive (ER+) breast cancer, but the underlying molecular mechanisms are largely unknown. Here, we show that 3-dimensional (3D) chromatin interactions both within and between topologically associating domains (TADs) frequently change in ER+ endocrine resistant breast cancer cells and that the differential interactions are enriched for genetic variants at CTCF-bound anchors. more...