Similar studies for GEO DataSets (Select 200047042) - GEO DataSets

(Submitter supplied) We report the ER alpha regulatory network of Tamoxifen resistance MCF7 cell line using the Chromatin immunoprecipitated high-throughput sequencing technology (ChIP-seq). By Integrating the gene expression data (previously reported) with the ChIP-seq data, we generated ER alpha regulatory network and pathways. For ER alpha regulatory network, hub TFs with enriched motifs were identified from ER alpha peak together with PolII peaks. more...

Organism:: Homo sapiens

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

Platform:: GPL9052
4 Samples

Download data: BED

Series

Accession:: GSE26083

ID:: 200026083

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000277135.

Genome-wide analysis of gene expression patterns in mir-122 knockout mice livers

(Submitter supplied) To invesigate the physiology roles of mir-122 in liver, we performed expression profiling of mir-122 knockout mice and the control B6/129 mice.

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL1261
7 Samples

Download data: CEL, CHP

Series

Accession:: GSE27713

ID:: 200027713

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2001090636.

A novel transcriptional network for the Androgen Receptor in human epididymis epithelial cells

(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

Platform:: GPL16791
21 Samples

Download data: BEDGRAPH

Series

Accession:: GSE109063

ID:: 200109063

PubMed Full text in PMC Similar studies

Select item 2001090627.

A novel transcriptional network for the Androgen Receptor in human epididymis epithelial cells [RNA-Seq]

(Submitter supplied) The androgen receptor (AR) has a pivotal role in regulating gene expression in the male reproductive system. Due to the involvement of AR in prostate cancer, its role is best studied in the prostate gland epithelium and prostate cancer cell lines. Here we investigate the transcriptional program of AR in normal human epididymis epithelial (HEE) cells. After AR stimulation of caput HEE cells with the synthetic androgen R1881, AR targets were revealed with RNA-sequencing. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL16791
8 Samples

Download data: TXT

Series

Accession:: GSE109062

ID:: 200109062

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Select item 2001090618.

A novel transcriptional network for the Androgen Receptor in human epididymis epithelial cells [ChIP-Seq]

(Submitter supplied) The androgen receptor (AR) has a pivotal role in regulating gene expression in the male reproductive system. Due to the involvement of AR in prostate cancer, its role is best studied in the prostate gland epithelium and prostate cancer cell lines. Here we investigate the transcriptional program of AR in normal human epididymis epithelial (HEE) cells. After AR stimulation of caput HEE cells with the synthetic androgen R1881, AR targets were revealed with RNA-sequencing. more...

Organism:: Homo sapiens

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

Platform:: GPL16791
13 Samples

Download data: BEDGRAPH

Series

Accession:: GSE109061

ID:: 200109061

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000625589.

Mapping gene regulatory networks in Drosophila eye development by large-scale transcriptome perturbations and motif inference

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

Organism:: Drosophila melanogaster

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

Platform:: GPL13304
82 Samples

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Series

Accession:: GSE62558

ID:: 200062558

PubMed Similar studies

Select item 20006255710.

Mapping gene regulatory networks in Drosophila eye development by large-scale transcriptome perturbations and motif inference [ChIP-Seq]

(Submitter supplied) Genome control is operated by transcription factors (TF) controlling their target genes by binding to promoters and enhancers. Conceptually, the interactions between TFs, their binding sites, and their functional targets are represented by gene regulatory networks (GRN). Deciphering in vivo GRNs underlying organ development in an unbiased genome-wide setting involves identifying both functional TF-gene interactions and physical TF-DNA interactions. more...

Organism:: Drosophila melanogaster

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

Platform:: GPL13304
2 Samples

Download data: BW

Series

Accession:: GSE62557

ID:: 200062557

PubMed Similar studies SRA Run Selector

Select item 20005905911.

Mapping gene regulatory networks in Drosophila eye development by large-scale transcriptome perturbations and motif inference. [RNA-seq]

(Submitter supplied) Genome control is operated by transcription factors (TF) controlling their target genes by binding to promoters and enhancers. Conceptually, the interactions between TFs, their binding sites, and their functional targets are represented by gene regulatory networks (GRN). Deciphering in vivo GRNs underlying organ development in an unbiased genome-wide setting involves identifying both functional TF-gene interactions and physical TF-DNA interactions. more...

Organism:: Drosophila melanogaster

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13304
80 Samples

Download data: TXT

Series

Accession:: GSE59059

ID:: 200059059

PubMed Similar studies SRA Run Selector

Select item 20004057812.

Differentially expressed genes during disuse atrophy.

(Submitter supplied) To identify atrophy genes directly targeted by Bcl-3 transactivator at a genome wide level, we performed whole transcript expression array and ChIP-seq for muscles from weight bearing or 5-day hind limb unloaded mice. Genes that showed increased expression with unloading and a Bcl-3 peak in the promoter (from ChIP-seq data) were considered as Bcl-3 direct targets during disuse atrophy. Using ChIP array, we identified 241 direct targets for Bcl-3. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL11078
8 Samples

Download data: CEL

Series

Accession:: GSE40578

ID:: 200040578

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20014289813.

Robust partitioning of microRNA targets from downstream regulatory changes [miRNA-seq]

(Submitter supplied) The biological impact of microRNAs is determined by their targets, and robustly identifying direct miRNA targets remains challenging. Existing methods suffer from high false-positive rates and are unable to effectively differentiate direct miRNA targets from downstream regulatory changes. Here, we present a simple approach to deconvolute post-transcriptional and transcriptional changes using PRO-seq with RNA-seq. more...

Organism:: Homo sapiens

Type:: Non-coding RNA profiling by high throughput sequencing

Platform:: GPL18573
3 Samples

Download data: TSV

Series

Accession:: GSE142898

ID:: 200142898

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Select item 20014289714.

Robust partitioning of microRNA targets from downstream regulatory changes [AGO-eCLIP-seq]

(Submitter supplied) The biological impact of microRNAs is determined by their targets, and robustly identifying direct miRNA targets remains challenging. Existing methods suffer from high false-positive rates and are unable to effectively differentiate direct miRNA targets from downstream regulatory changes. Here, we present a simple approach to deconvolute post-transcriptional and transcriptional changes using PRO-seq with RNA-seq. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Other

Platform:: GPL18573
6 Samples

Download data: BED, TSV

Series

Accession:: GSE142897

ID:: 200142897

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Select item 20014289515.

Robust partitioning of microRNA targets from downstream regulatory changes [RNA-seq]

(Submitter supplied) The biological impact of microRNAs is determined by their targets, and robustly identifying direct miRNA targets remains challenging. Existing methods suffer from high false-positive rates and are unable to effectively differentiate direct miRNA targets from downstream regulatory changes. Here, we present a simple approach to deconvolute post-transcriptional and transcriptional changes using PRO-seq with RNA-seq. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL18573
24 Samples

Download data: TSV

Series

Accession:: GSE142895

ID:: 200142895

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

Select item 20014036716.

Robust partitioning of microRNA targets from downstream regulatory changes

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

Organism:: Homo sapiens

Type:: Other; Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:: GPL18573
69 Samples

Download data: BED, BW

Series

Accession:: GSE140367

ID:: 200140367

PubMed Full text in PMC Similar studies

Select item 20014036617.

Robust partitioning of microRNA targets from downstream regulatory changes [Ribo-seq]

(Submitter supplied) MicroRNA’s function is defined by the targets it regulates. Despite miRNAs’ crucial role in various cellular processes and disease states, the identification of their targets remains challenging. Existing methods suffer from high false-positive rates and are inadequate in differentiating direct targets from downstream regulatory changes. Here, we introduce a simple approach involving combined analysis of RNA-seq and Precise RunOn-seq (PRO-seq) (CARP) to effectively measure post-transcriptional regulation. more...

Organism:: Homo sapiens

Type:: Other; Expression profiling by high throughput sequencing

Platform:: GPL18573
12 Samples

Download data: TSV

Series

Accession:: GSE140366

ID:: 200140366

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20014036518.

Robust partitioning of microRNA targets from downstream regulatory changes [PRO-seq]

(Submitter supplied) The biological impact of microRNAs is determined by their targets, and robustly identifying direct miRNA targets remains challenging. Existing methods suffer from high false-positive rates and are unable to effectively differentiate direct miRNA targets from downstream regulatory changes. Here, we present a simple approach to deconvolute post-transcriptional and transcriptional changes using PRO-seq with RNA-seq. more...

Organism:: Homo sapiens

Type:: Other

Platform:: GPL18573
24 Samples

Download data: BW, TSV

Series

Accession:: GSE140365

ID:: 200140365

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

Select item 20008654719.

The histone demethylase KDM3A regulates the transcriptional program of the androgen receptor in prostate cancer cells

(Submitter supplied) To identify the genes regulated by androgen receptor (AR), we performed the profiling array analysis on the CWR22Rv1 cells and determined the differentially expressed genes upon the knockdown of AR.