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Items: 1 to 20 of 342918

1.

Single-molecule RNA-FISH analysis reveals stochasticity in reactivation of latent HIV-1 regulated by Nuclear Orphan Receptors NR4A and cMYC

(Submitter supplied) HIV-1 eradication strategies require reactivation of all latent cells. Current methods lack effectiveness due to incomplete knowledge of proviral reactivation. We employed a single-molecule RNA-FISH (smRNA-FISH) analysis and found that proviral reactivation is highly variable, stochastic, and occurs in bursts and waves, with different kinetics in response to diverse LRAs. Approximately 1-5% of latent cells displayed stochastic reactivation even without stimulation. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
3 Samples
Download data: MTX, TSV
Series
Accession:
GSE241207
ID:
200241207
2.

The OTX2-regulated alternative splicing landscape controls differentiation and reconstitutes the developmental origins of Group 3 medulloblastoma

(Submitter supplied) RNA sequencing was performed on Group 3 medulloblastoma tumorspheres following PPHLN Morpholino treatment or scramble control.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
8 Samples
Download data: TXT
Series
Accession:
GSE222699
ID:
200222699
3.

Transcriptomic profiling of osteoarthritis synovial macrophages reveals a tolerized phenotype compounded by a weak corticosteroid response

(Submitter supplied) It is well-known that long-term osteoarthritis prognosis is not improved by corticosteroid treatments. Here we investigate what could underlie this phenomenon by measuring the short term corticosteroid response of osteoarthritic joint synovial macrophages (OA-Mf).
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
48 Samples
Download data: TXT
Series
Accession:
GSE124928
ID:
200124928
4.

Cellular adaptation to cancer therapy along a resistance continuum

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below. Advancements in precision oncology over the past decades have led to new therapeutic interventions, but the efficacy of such treatments is generally limited by an adaptive process that fosters drug resistance. Beyond genetic mutations, recent research has shed light on the role of non-genetic plasticity in transient drug tolerance and the acquisition of stable resistance. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other
Platforms:
GPL18573 GPL24676
93 Samples
Download data
Series
Accession:
GSE247691
ID:
200247691
5.

Cellular adaptation to cancer therapy along a resistance continuum [scRNA-seq: PDX]

(Submitter supplied) Advancements in precision oncology over the past decades have led to new therapeutic interventions, but the efficacy of such treatments is generally limited by an adaptive process that fosters drug resistance. Beyond genetic mutations, recent research has shed light on the role of non-genetic plasticity in transient drug tolerance and the acquisition of stable resistance. However, the dynamics of cell state transitions occurring in the adaptation to cancer therapies remain elusive and require a systems-level longitudinal framework. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL18573 GPL24676
17 Samples
Download data: CSV, TSV
Series
Accession:
GSE247690
ID:
200247690
6.

Cellular adaptation to cancer therapy along a resistance continuum [scRNA-seq: Ovsaho_COV362]

(Submitter supplied) Advancements in precision oncology over the past decades have led to new therapeutic interventions, but the efficacy of such treatments is generally limited by an adaptive process that fosters drug resistance. Beyond genetic mutations, recent research has shed light on the role of non-genetic plasticity in transient drug tolerance and the acquisition of stable resistance. However, the dynamics of cell state transitions occurring in the adaptation to cancer therapies remain elusive and require a systems-level longitudinal framework. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
10 Samples
Download data: CSV, TSV
Series
Accession:
GSE247689
ID:
200247689
7.

Cellular adaptation to cancer therapy along a resistance continuum [scRNA-Seq: Kuramochi_Persisters]

(Submitter supplied) Advancements in precision oncology over the past decades have led to new therapeutic interventions, but the efficacy of such treatments is generally limited by an adaptive process that fosters drug resistance. Beyond genetic mutations, recent research has shed light on the role of non-genetic plasticity in transient drug tolerance and the acquisition of stable resistance. However, the dynamics of cell state transitions occurring in the adaptation to cancer therapies remain elusive and require a systems-level longitudinal framework. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
10 Samples
Download data: CSV, TSV
Series
Accession:
GSE247688
ID:
200247688
8.

Cellular adaptation to cancer therapy along a resistance continuum [CRISPR-Screen: Kuramochi]

(Submitter supplied) Advancements in precision oncology over the past decades have led to new therapeutic interventions, but the efficacy of such treatments is generally limited by an adaptive process that fosters drug resistance. Beyond genetic mutations, recent research has shed light on the role of non-genetic plasticity in transient drug tolerance and the acquisition of stable resistance. However, the dynamics of cell state transitions occurring in the adaptation to cancer therapies remain elusive and require a systems-level longitudinal framework. more...
Organism:
Homo sapiens
Type:
Other
Platform:
GPL18573
8 Samples
Download data: TSV
Series
Accession:
GSE247686
ID:
200247686
9.

Cellular adaptation to cancer therapy along a resistance continuum [ATAC-seq: Kuramochi]

(Submitter supplied) Advancements in precision oncology over the past decades have led to new therapeutic interventions, but the efficacy of such treatments is generally limited by an adaptive process that fosters drug resistance. Beyond genetic mutations, recent research has shed light on the role of non-genetic plasticity in transient drug tolerance and the acquisition of stable resistance. However, the dynamics of cell state transitions occurring in the adaptation to cancer therapies remain elusive and require a systems-level longitudinal framework. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL18573
28 Samples
Download data: BW, TSV
Series
Accession:
GSE247685
ID:
200247685
10.

Cellular adaptation to cancer therapy along a resistance continuum [scRNA-seq: A375_PC9]

(Submitter supplied) Advancements in precision oncology over the past decades have led to new therapeutic interventions, but the efficacy of such treatments is generally limited by an adaptive process that fosters drug resistance. Beyond genetic mutations, recent research has shed light on the role of non-genetic plasticity in transient drug tolerance and the acquisition of stable resistance. However, the dynamics of cell state transitions occurring in the adaptation to cancer therapies remain elusive and require a systems-level longitudinal framework. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
6 Samples
Download data: CSV, TSV
Series
Accession:
GSE247684
ID:
200247684
11.

Metabolic adaptation pilots the differentiation of human hematopoietic 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; Other
Platforms:
GPL18573 GPL24676 GPL15520
63 Samples
Download data: CSV, H5, TSV
Series
Accession:
GSE243006
ID:
200243006
12.

Metabolic adaptation pilots the differentiation of human hematopoietic cells (scRNA-Seq and CITE-Seq)

(Submitter supplied) In order to get insight in the role of metabolic perturbations during the first steps of cell differentiation, the phenotype, gene expression profile and chromatin accessibility of CD34+ cells were examined using bulk- and single-cell techniques during the initial 96 hours of in vitro differentiation. Specific enzyme inhibitors targeting key steps of the energy metabolism were employed to induce perturbations and assess their effect. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Other
Platform:
GPL18573
18 Samples
Download data: MTX, TSV
Series
Accession:
GSE243005
ID:
200243005
13.

Metabolic adaptation pilots the differentiation of human hematopoietic cells (bulk ATAC-Seq)

(Submitter supplied) In order to get insight in the role of metabolic perturbations during the first steps of cell differentiation, the phenotype, gene expression profile and chromatin accessibility of CD34+ cells were examined using bulk- and single-cell techniques during the initial 96 hours of in vitro differentiation. Specific enzyme inhibitors targeting key steps of the energy metabolism were employed to induce perturbations and assess their effect. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL15520 GPL18573
41 Samples
Download data: CSV, RDS
Series
Accession:
GSE243003
ID:
200243003
14.

Cellular adaptation to cancer therapy along a resistance continuum [scRNA-Seq: Kuramochi]

(Submitter supplied) Advancements in precision oncology over the past decades have led to new therapeutic interventions, but the efficacy of such treatments is generally limited by an adaptive process that fosters drug resistance. Beyond genetic mutations, recent research has shed light on the role of non-genetic plasticity in transient drug tolerance and the acquisition of stable resistance. However, the dynamics of cell state transitions occurring in the adaptation to cancer therapies remain elusive and require a systems-level longitudinal framework. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
10 Samples
Download data: CSV, TSV, TXT
Series
Accession:
GSE206125
ID:
200206125
15.

Calcineurin-NFAT signaling controls the neutrophils´ ability of chemoattraction upon fungal infection.

(Submitter supplied) Calcineurin-nuclear factor of activated T-cell (CN-NFAT) inhibitors are widely clinically used drugs for immunosuppression but besides their required T-cell response inhibition, they also undesirably affect innate immune cells. Disruption of innate immune cell function can explain the observed susceptibility of CN-NFAT inhibitors-treated patients to opportunistic fungal infections. Neutrophils play a crucial role in the innate immunity pathogen defense, while however the effect of CN-NFAT inhibitors on neutrophil function is poorly described. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
24 Samples
Download data: TXT
Series
Accession:
GSE259282
ID:
200259282
16.

Immunotherapeutic targeting of surfaceome heterogeneity in AML

(Submitter supplied) Immunotherapy remains underexploited in AML compared to other hematological malignancies. Currently, gemtuzumab ozogamicin is the only therapeutic antibody approved for this disease. To identify potential targets for immunotherapeutic intervention, we analyzed the surface proteome of 100 genetically diverse primary human AML specimens for the identification of cell surface proteins and conducted single-cell transcriptome analysis on a subset of these specimens to assess antigen expression at the sub-population level. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL24676 GPL18573
18 Samples
Download data: MTX, TSV
Series
Accession:
GSE241989
ID:
200241989
17.

Multi-level proteomics profiling of virus restrictive and -permissive cellular environments reveal regulatory factors of virus infection

(Submitter supplied) Virus proliferation inside host cells relies on a diverse range of host machineries and is also restricted by the host through antiviral factors. The configuration of virus-dependency and antiviral factors determine the permissiveness of host cells to virus infection, however, overall differences between highly permissive and restrictive cellular states remain largely unexplored. Here we employed integrated omics analysis combining RNA-seq, proteomics, and phosphoproteomics to study determinants of virus permissiveness on a model system comprising multiple cellular states: highly permissive cells (HEK293T), steady-state cells (HEK293), and restrictive cells (interferon alpha (IFN-a) stimulated HEK293) due to their similar genetic background and distinct permissiveness. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
9 Samples
Download data: CSV, TSV
Series
Accession:
GSE267610
ID:
200267610
18.

Mast Cells Control Lung Type 2 Inflammation via Prostaglandin E2-Driven Soluble ST2.

(Submitter supplied) Severe asthma and sinus disease is a consequence of Type 2 inflammation (T2I), mediated by IL-33 signaling through its membrane-bound receptor, ST2. Soluble (s)ST2 reduces available IL-33 and limits T2I, but little is known about its regulation. We demonstrate that prostaglandin E2 (PGE2) drives production of sST2 to limit features of lung T2I. PGE2 deficient mice display diminished sST2. In humans with severe respiratory T2I, urinary PGE2 metabolites correlate with serum sST2. more...
Organism:
Homo sapiens; Mus musculus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL18573 GPL24247
20 Samples
Download data: RDS
Series
Accession:
GSE266501
ID:
200266501
19.

Epitranscriptomic cytidine methylation of the Hepatitis B viral RNA encapsidation signal ensure the reverse transcription of viral RNA [PA-m5C-seq 2]

(Submitter supplied) Epitranscriptomic RNA modifications have emerged as important regulators of the fate and function of both cellular and viral RNAs. One prominent modification, the cytidine methylation 5-methylcytidine (m5C), is found on the RNA of HIV-1, where m5C enhances the translation and splicing of HIV-1 RNA. However, whether m5C functionally enhances the RNA of other pathogenic viruses remain elusive. Here, we report that the RNA of hepatitis B virus (HBV) is enriched with a high level of m5C, mediated mainly through the cellular methyltransferase NSUN2. more...
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL18573
1 Sample
Download data: BED
Series
Accession:
GSE261877
ID:
200261877
20.

Epitranscriptomic cytidine methylation of the Hepatitis B viral RNA encapsidation signal ensure the reverse transcription of viral RNA [PAR-CLIP]

(Submitter supplied) Epitranscriptomic RNA modifications have emerged as important regulators of the fate and function of both cellular and viral RNAs. One prominent modification, the cytidine methylation 5-methylcytidine (m5C), is found on the RNA of HIV-1, where m5C enhances the translation and splicing of HIV-1 RNA. However, whether m5C functionally enhances the RNA of other pathogenic viruses remain elusive. Here, we report that the RNA of hepatitis B virus (HBV) is enriched with a high level of m5C, mediated mainly through the cellular methyltransferase NSUN2. more...
Organism:
Homo sapiens
Type:
Other
Platform:
GPL18573
2 Samples
Download data: BED
Series
Accession:
GSE250108
ID:
200250108
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