GPL20301[RGSE] - GEO DataSets

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Select item 2001781781.

Transcriptomic analysis of Hsp90 inhibitor (Hsp90i)-treated HIV-infected pediatric tonsillar mononuclear cells

(Submitter supplied) Purpose: Hsp90 is a host chaperone protein that regulates cellular homeostasis by interacting with a diverse clientele of cellular proteins. Several of these proteins are involved in cellular pathways that play crucial roles in facilitating HIV replication. Identification of key cellular genes that are utilized by HIV for their replication, and whose expression is altered by Hsp90i, will lead to the development of targeted HIV therapeutics, which will ultimately be utilized for HIV cure. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20301
16 Samples

Download data: XLSX

Series

Accession:: GSE178178

ID:: 200178178

SRA Run Selector

Select item 2002696992.

Hypoxia drives HIF2-dependent reversible macrophagecellcycle entry

(Submitter supplied) Macrophages play critical roles across health and disease. Low oxygen conditions (hypoxia) have been associated primarily with cell cycle arrest in dividing cells. Macrophages are typically quiescent in G0, though yolk sac and bone marrow derived macrophages frequently proliferate and monocyte-derived tissue macrophages are able to proliferate in response to tissue signals. Here we show that hypoxia (1% oxygen tension) results in reversible entry into the cell cycle in human monocyte derived macrophages (MDM) and mouse peritoneal macrophages. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20301
6 Samples

Download data: SF

Series

Accession:: GSE269699

ID:: 200269699

Select item 2002133603.

A chronic signaling TGFb zebrafish reporter identifies immune response in melanoma

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

Organism:: Danio rerio; Homo sapiens

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

Platforms:: GPL21741 GPL20301 GPL20828
40 Samples

Download data: NARROWPEAK, TSV

Series

Accession:: GSE213360

ID:: 200213360

Select item 2002133274.

A chronic signaling TGFb zebrafish reporter identifies immune response in melanoma [RNA-seq, A375]

(Submitter supplied) Developmental signaling pathways associated with growth factors such as TGFb are commonly dysregulated in melanoma. Here we identified a human TGFb enhancer that was specifically activated in melanoma cells treated with TGFB1 ligand. We generated stable transgenic zebrafish with this enhancer driving green fluorescent protein (TIE:EGFP). EGFP was not expressed in normal melanocytes or early melanomas but was expressed in spatially distinct regions of mature melanomas. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20301
6 Samples

Download data: TXT

Series

Accession:: GSE213327

ID:: 200213327

Select item 2002133265.

A chronic signaling TGFb zebrafish reporter identifies immune response in melanoma [ChIP-seq]

Organism:: Homo sapiens

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

Platform:: GPL20301
16 Samples

Download data: NARROWPEAK

Series

Accession:: GSE213326

ID:: 200213326

Select item 2002695316.

The penetrant chordoid glioma PRKCA mutation is an oncogenic gain-of-function kinase inactivation eliciting early onset chondrosarcoma in mice

(Submitter supplied) A highly penetrant heterozygous mutation in PRKCA was found recently in chordoid glioma. To establish whether this mutant of PKCapha was a driver of tumour formation or maintenance in vivo, knock-in mice were generated. The constitutive, heterozygous expression of the Prkca D463H mutant in mice provoked the development of bilateral hindlimb chondrosarcomas and early neonatal mortality. The lack of activity of the D463H mutant was not the trigger of the phenotype as heterozygous knock-in of the related inactivating mutation D463N produced offspring indistinguishable from parental strains. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20301
11 Samples

Download data: TXT

Series

Accession:: GSE269531

ID:: 200269531

Select item 2002660127.

Effect of CRY2 stabilizer and proteasome inhibitor on the activity of cis-regulatory elements in MDA-MB-231 cells [STARR-seq]

(Submitter supplied) In this experiment we performed STARR-seq on MDA-MB-231 cells that are treated with different drugs to test the features of cis-regulatory elements that make their activity potentially repressed by these small molecules.

Organism:: Homo sapiens

Type:: Other

Platform:: GPL20301
4 Samples

Download data: TXT

Series

Accession:: GSE266012

ID:: 200266012

Select item 2002660118.

Effect of CRY2 stabilizer and proteasome inhibitor on the transcription of MDA-MB-231 cells [RNA-seq]

(Submitter supplied) In this study we tested if the transcriptional activity of circadian transcription factors, BMAL1 and CLOCK, can be repressed by small molecules in triple negative breast cancer cells. We validated that CRY inhibitors and proteasome inhibitors synergize and can recapitulate the phenotype of genetic knockdown of BMAL1 and CLOCK. To investigate the potential mechanism of the effect of this drug combination, we performed RNA sequencing analysis on cells treated with either single drug or drug combination at different time points.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20301
36 Samples

Download data: TXT

Series

Accession:: GSE266011

ID:: 200266011

Select item 2002660139.

Effect of CRY2 stabilizer and proteasome inhibitor on MDA-MB-231 cells

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

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Other

Platform:: GPL20301
40 Samples

Download data: TXT

Series

Accession:: GSE266013

ID:: 200266013

Select item 20024948910.

scRNAseq of RPE-hTert cells expressing different levels of predictive reporter construct

(Submitter supplied) Single cell sequencing of RPE1-hTert cells transduced with the NLS-mVenus-P2A-ER:HRAS^G12V construct, and then flow-sorted into subpopulations based on increasing mVenus intensity, corresponding to different levels of oncogenic RAS stabilised upon induction with 4OHT.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20301
2 Samples

Download data: MTX, TSV, TXT

Series

Accession:: GSE249489

ID:: 200249489

Select item 20022295111.

Titration of RAS alters senescent state and influences tumour initiation

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

Organism:: Mus musculus; Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL24247 GPL20301
58 Samples

Download data: MTX, TSV, TXT

Series

Accession:: GSE222951

ID:: 200222951

Select item 20022233712.

RNAseq of RPE-hTert cells expressing different levels of predictive reporter construct

(Submitter supplied) RNAseq of different subpopulations of RPE1 cells expressing predictive reporter construct, pre- and on Day 6 post-induction with 4OHT

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20301
50 Samples

Download data: TXT

Series

Accession:: GSE222337

ID:: 200222337

Select item 20026313413.

CircRNA sequencing data of tumors and paired adjacent tissue from HCC patients

(Submitter supplied) CircRNAs have emerged as crucial contributors to cancer progression. Nonetheless, the expression regulation, biological functions, and underlying mechanisms of circRNAs in mediating hepatocellular caicinoma(HCC) progression remain insuffuciently elucidated. In this study, we generated the circular RNA expression profile of HCC tissue together with the adjacent normal tissues by high-throughput RNA sequencing.

Organism:: Homo sapiens

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

Platform:: GPL20301
10 Samples

Download data: TXT

Series

Accession:: GSE263134

ID:: 200263134

Select item 20023388614.

Girolline is a sequence-context specific modulator of eIF5A activity

(Submitter supplied) Natural products have a long history of providing potent probes into protein biosynthesis, with numerous molecules serving as valuable therapeutics. The marine natural product girolline has been described as an inhibitor of protein synthesis. Here, we demonstrate that it is not a general translation inhibitor but represents a sequence-specific modulator of translation factor eIF5A. Girolline interferes with ribosome-eIF5A interaction and induces ribosome stalling, primarily on AAA-encoded lysine. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Other

Platform:: GPL20301
12 Samples

Download data: TXT

Series

Accession:: GSE233886

ID:: 200233886

Analyze with GEO2R

Select item 20023132815.

Human Smc5/6 recognizes transcription-generated positive DNA supercoils

(Submitter supplied) Beyond its essential roles in ensuring faithful chromosome segregation and genomic stability, the human Smc5/6 complex acts as an antiviral factor. It binds to and impedes the transcription of extrachromosomal DNA templates; an ability which is lost upon chromosomal DNA integration. How the complex distinguishes among different DNA templates is unknown. Here we show that, in human cells, Smc5/6 preferentially binds to circular rather than linear extrachromosomal DNA. more...

Organism:: Homo sapiens

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

Platforms:: GPL24676 GPL20301
9 Samples

Download data: BED

Series

Accession:: GSE231328

ID:: 200231328

Select item 20022939916.

PGE2 alters chromatin through H2A.Zvariant enhancer nucleosome modification to promote hematopoietic stem cell fate

(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

Platforms:: GPL16791 GPL20301
62 Samples

Download data: BW

Series

Accession:: GSE229399

ID:: 200229399

Select item 20022939817.

PGE2 alters chromatin through H2A.Zvariant enhancer nucleosome modification to promote hematopoietic stem cell fate (RNA-Seq)

(Submitter supplied) Hematopoietic stem and progenitor cells (HSPCs) need require tight transcriptional regulation. In-depth knowledge on how epigenetic mechanisms regulate chromatin landscape in order to control gene expression, particularly in response to external stimuli, will be key to understand the pathogenesis of hematologic disorders and improve blood stem cell-based therapies. Prostaglandin E2 (PGE2) and its metabolically resistant analog 16,16-dimethyl-PGE2 (dmPGE2) were previously identified as a potent external stimulus to enhance HSPC engraftment. more...