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Items: 1 to 20 of 208050

1.

Multilevel Plasticity and Altered Glycosylation Drive Aggressiveness in Hypoxic and Glucose-Deprived Bladder Cancer Cells

(Submitter supplied) Bladder tumours with aggressive characteristics often present microenvironmental niches marked by low oxygen levels (hypoxia) and limited glucose supply due to inadequate vascularization. The molecular mechanisms facilitating cellular adaptation to these stimuli remain largely elusive. Employing a multi-omics approach, we discovered that hypoxic and glucose-deprived cancer cells enter a quiescent state supported by mitophagy, fatty acid β-oxidation, and amino acid catabolism, concurrently enhancing their invasive capabilities. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
4 Samples
Download data: CSV, TXT
Series
Accession:
GSE284635
ID:
200284635
2.

Hypoxia dysregulates circadian rhythm and causes synapse elimination defects in astrocytes

(Submitter supplied) In this study, we used human cortical organoids (hCOs) derived from induced pluripotent stem cells (iPSCs) to examine how hypoxia exposure interferes with astrocyte synapse engulfment at 6 months in culture and 10 months in culture, equivalent to mid fetal- or neonatal-equivalent stages of development, respectively. We identified that hypoxia inhibits the synaptosome engulfment by human astrocytes at both developmental stages, with a more pronounced phenotype in 10 months astrocytes. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
28 Samples
Download data: TXT
Series
Accession:
GSE255588
ID:
200255588
3.

Chronic Lymphocytic Leukemia in African Ancestry Population is Characterized by Increased Genomic Instability

(Submitter supplied) Despite the considerable effort to characterize the genomic landscape of chronic lymphocytic leukemia (CLL), published data have been almost exclusively derived from patients of European Ancestry (EA), with significant underrepresentation of minorities, including patients of African Ancestry (AA). Furthermore, although over a decade has passed since the initial observations of AA CLL patients suggesting an increased frequency of adverse prognostic factors and inferior clinical outcomes when compared to EA CLL, the differences between populations remain poorly understood. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
350 Samples
Download data: TXT
Series
Accession:
GSE246521
ID:
200246521
4.

TGF-β1-induced m6A modifications accelerate onset of nuclear cataract in high myopia by influencing the PCP pathway [meRIP-seq]

(Submitter supplied) High myopia is a major cause of blindness worldwide, characterized by early-onset nuclear cataracts, whose underlying mechanisms remains largely unexplained. Here, we identify a conspicuously polarized lens fiber alignment in highly myopic cataracts (HMC) and a simultaneous rise in N6-methyladenosine (m6A) modifications induced by elevated transforming growth factor-β1 (TGF-β1) in lens. Mechanistically, methyltransferase METTL3 and m6A reader insulin-like growth factor 2 mRNA binding protein 3 synergistically enhance planar cell polarity (PCP) signaling through affecting mRNA stability of dishevelled 2. more...
Organism:
Homo sapiens
Type:
Other
Platforms:
GPL24676 GPL20301
12 Samples
Download data: TXT
Series
Accession:
GSE244037
ID:
200244037
5.

CD8α and CD70 mark human natural killer cell populations which differ in cytotoxicity

(Submitter supplied) Natural Killer (NK) cells are innate immune cells that can directly detect and kill cancer cells. Understanding the molecular determinants regulating human NK cell cytotoxicity could help harness these cells for cancer therapies. To this end, we compared the transcriptome of NK cell clones derived from human peripheral blood, which were strongly or weakly cytotoxic against 721.221 and other target cells. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
27 Samples
Download data: TXT
Series
Accession:
GSE289212
ID:
200289212
6.

FBXW7 Mutations Reprograms Glucose Metabolism by Activating the ETV6-GLUT Axis in Endometrial Cancer

(Submitter supplied) Endometrial cancer (EC) is associated with metabolic reprogramming, driven in part by mutations in FBXW7, a key tumor suppressor. In this study, we reveal that FBXW7 regulates glucose metabolism by targeting ETV6 for ubiquitination and proteasomal degradation. Loss of FBXW7 leads to ETV6 stabilization, which in turn upregulates GLUT1 expression and promotes its localization to the plasma membrane. This enhances glucose uptake and reprograms cellular metabolism toward increased aerobic glycolysis and oxidative phosphorylation. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
6 Samples
Download data: TXT
Series
Accession:
GSE289181
ID:
200289181
7.

Enterochromaffin cells act as intestinal signal integration hubs for microbial metabolites

(Submitter supplied) The intestinal epithelium senses and responds to the myriad of signals from gut microbiota, but it remains unclear how these signals are integrated to drive physiological responses. In this work, we found that enterochromaffin (EC) cells in the gut serve as signal integration hubs for microbial metabolites. EC cells coordinate responses to combinations of microbial metabolites, resulting in complex alterations in serotonin signaling that drive changes in GI physiology. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL20301
18 Samples
Download data: BED
Series
Accession:
GSE286305
ID:
200286305
8.

RNA-seq and IP-seq of Rbfox1(WT)/LASR and Rbfox1(F125A)/LASR

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Other
Platforms:
GPL24676 GPL20301
15 Samples
Download data
Series
Accession:
GSE272026
ID:
200272026
9.

RNA sequencing of Flp-In 293 Rbfox2 KO#7 parental, Rbfox1(WT), and Rbfox1(F125A) expressing cells

(Submitter supplied) How does Rbfox's binding to its canonical motif through its RRM contribute to its splicing activity? Splicing changes will be assessed in cells that don't express Rbfox versus cells that express wildtype Rbfox1, and cells that express the RNA binding mutant Rbfox1(F125A).
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
9 Samples
Download data: XLSX
Series
Accession:
GSE271886
ID:
200271886
10.

Human adult high-plasticity stem cells generated by cell-cell communication

(Submitter supplied) We report the discovery of a population of tiny, dormant cells from human peripheral blood, which upon activation and maturation in vitro exhibit unique transcriptome and cellular phenotypes, distinct from all known cell types. These novel cells can deliver RNA-rich granules to suitable recipient cells and provide guidance, and are thus named “mature Guide Cells” (or m-GCs) and their dormant precursors are named “pre-GCs.” When m-GCs are co-cultured with human umbilical cord-derived mesenchymal stromal cells (UC-MSCs), cell-cell communication occurs in which RNA-rich granules are transferred from m-GCs to UC-MSCs via tunneling nanotubes (TNT). more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL20301 GPL24676
22 Samples
Download data: MTX, TSV, TXT
Series
Accession:
GSE242346
ID:
200242346
11.

TFE3 fusion proteins drive oxidative metabolism, ferroptosis resistance and general RNA synthesis in translocation renal cell carcinoma

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platforms:
GPL20301 GPL30173
52 Samples
Download data: BED
Series
Accession:
GSE268093
ID:
200268093
12.

TFE3 fusion proteins drive oxidative metabolism, ferroptosis resistance and general RNA synthesis in translocation renal cell carcinoma. [RNA-seq]

(Submitter supplied) The oncogenic mechanisms by which TFE3 fusion proteins drive translocation renal cell carcinoma (tRCC) are poorly characterised. Here, we integrated loss and gain of function experiments with multi-omics analyses in tRCC cell lines and patient tumors. High nuclear accumulation of NONO-TFE3 or PRCC-TFE3 fusion proteins promotes their broad binding across the genome, engaging a core set of M/E-box-containing regulatory elements to activate specific gene expression programs as well as promiscuous binding to active promoters to stimulate mRNA synthesis. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
36 Samples
Download data: XLSX
Series
Accession:
GSE268092
ID:
200268092
13.

TFE3 fusion proteins drive oxidative metabolism, ferroptosis resistance and general RNA synthesis in translocation renal cell carcinoma. [Cut and Tag/ChIP-seq]

(Submitter supplied) The oncogenic mechanisms by which TFE3 fusion proteins drive translocation renal cell carcinoma (tRCC) are poorly characterised. Here, we integrated loss and gain of function experiments with multi-omics analyses in tRCC cell lines and patient tumors. High nuclear accumulation of NONO-TFE3 or PRCC-TFE3 fusion proteins promotes their broad binding across the genome, engaging a core set of M/E-box-containing regulatory elements to activate specific gene expression programs as well as promiscuous binding to active promoters to stimulate mRNA synthesis. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL30173 GPL20301
16 Samples
Download data: BED
Series
Accession:
GSE268089
ID:
200268089
14.

Genetic effects on chromatin accessibility uncover mechanisms of liver gene regulation and quantitative traits

(Submitter supplied) Chromatin accessibility quantitative trait locus (caQTL) studies have identified regulatory elements that may underlie genetic effects on gene expression and clinical quantitative traits. However, caQTL discovery has been limited by the sample sizes of previous studies. Here, we mapped caQTL in liver tissue from 138 human donors and identified caQTL for 35,361 regulatory elements. We identified 2,126 caQTL signals containing multiple regulatory elements, suggesting coordinated regulation of elements at these loci. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL20301 GPL20795
477 Samples
Download data: BED
Series
Accession:
GSE264684
ID:
200264684
15.

m6A modification governs the stability of both methylated and unmethylated mRNA isoforms across the transcriptome

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Other
Platforms:
GPL20301 GPL18573
162 Samples
Download data
Series
Accession:
GSE219125
ID:
200219125
16.

Effects of m6A modification on turnover of newly synthesized mRNAs at the transcriptome level.

(Submitter supplied) We developed a method to deconvolute decays of m6A mRNAs and their unmethylated isoforms from newly synthesized total RNAs across the transcriptome to study the effects of m6A modification on decays of not only the m6A-modified RNA pool but also the unmehnylated isoform pool.
Organism:
Homo sapiens
Type:
Other
Platform:
GPL20301
36 Samples
Download data: TXT
Series
Accession:
GSE218267
ID:
200218267
17.

Transcriptome-based mapping of m6A sites in newly synthesized mRNA population in U2OS cells.

(Submitter supplied) The goal was to see whether and how mRNA stability is linked to m6A peak position in newly synthesized mRNA population.
Organism:
Homo sapiens
Type:
Other
Platform:
GPL20301
4 Samples
Download data: TXT
Series
Accession:
GSE218266
ID:
200218266
18.

Effects of m6A modification and YTHDF2 knockdown on global mRNA turnover

(Submitter supplied) We developed a method to deconvolute decays of m6A mRNAs and their unmethylated isoforms from total RNAs across the transcriptome and combined this method with the knockdown of m6A reader protein to study the effect on global mRNA turnover.
Organism:
Homo sapiens
Type:
Other
Platform:
GPL20301
54 Samples
Download data: TXT
Series
Accession:
GSE218263
ID:
200218263
19.

Differential effects of m6A modification and YTHDF2 knockdown on global mRNA turnover

(Submitter supplied) We developed a method to deconvolute decays of m6A mRNAs and their unmethylated isoforms from total RNAs across the transcriptome and combined it with the knockdown of m6A reader protein to study it's effect on global mRNA turnover.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Other
Platform:
GPL20301
54 Samples
Download data: TXT
Series
Accession:
GSE181814
ID:
200181814
20.

Transcriptome-wide mapping of m6A sites with or without YTHDF2 (DF2) knock-down in U2OS cells.

(Submitter supplied) The goal was to see whether and how mRNA stability is linked to m6A peak position in mRNA.
Organism:
Homo sapiens
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL20301
8 Samples
Download data: TXT
Series
Accession:
GSE181079
ID:
200181079
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