TP53 activated protein 1 - GEO DataSets

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Select item 2002620541.

Charting the regulatory landscape of TP53 on transposable elements in cancer [WGBS]

(Submitter supplied) The relationship between p53 and transposable elements (TEs) has been obscure. Thus, comprehensive profiling of TE-derived transcripts dynamics under the regulation of p53 provides valuable resources for more clarity in p53’s roles in cancer. In this study, we created three cancer cell lines with p53 genetic status as the only variable and combined long-read RNA-seq and short-read RNA-seq to define TE and TE-derived transcripts’ regulatory dynamics. more...

Organism:: Homo sapiens

Type:: Methylation profiling by high throughput sequencing

Platform:: GPL24676
24 Samples

Download data: BEDGRAPH

Series

Accession:: GSE262054

ID:: 200262054

Select item 2002620532.

Charting the regulatory landscape of TP53 on transposable elements in cancer [RNA-seq]

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
72 Samples

Download data: CSV, TSV

Series

Accession:: GSE262053

ID:: 200262053

Select item 2002620523.

Charting the regulatory landscape of TP53 on transposable elements in cancer [ChIP-seq]

Organism:: Homo sapiens

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

Platform:: GPL34295
9 Samples

Download data: BEDGRAPH

Series

Accession:: GSE262052

ID:: 200262052

Select item 2002620514.

Charting the regulatory landscape of TP53 on transposable elements in cancer [ATAC-seq]

(Submitter supplied) Comprehensive profiling of transposable element (TE)-derived transcripts dynamics under the regulation of p53 provides valuable resources for more clarity in p53 pleiotropic roles in cancer. In this project, we created three cancer cell lines with p53 genetic status as the only variable and used long-read RNA-seq to profile TE and TE-derived transcripts’ regulatory dynamics. By using both short-read RNA-seq and long-read RNA-seq, novel TE-derived transcripts as a function of p53 status were accurately profiled for the first time. more...

Organism:: Homo sapiens

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

Platform:: GPL18573
24 Samples

Download data: BEDGRAPH, BW

Series

Accession:: GSE262051

ID:: 200262051

Select item 2002398175.

Mutant p53 gain-of-function impact is repressed in the presence of other major oncogenic drivers

(Submitter supplied) Mutant TP53, mutant KRAS and hyperactive CMYC are driver oncogenes with no standard clinical protocols for their direct targeting. To identify interplay of mutant TP53, KRAS and hyperactive CMYC, and exploit them in a therapeutic manner, we performed global proteomics and transcriptomics in a panel of 8 cell lines of colorectal and lung cancers 48h post knock-out of the oncogenes with CRISPR/Cas9. In each cancer type the cell lines containing either all, or one, of each of the activated oncogenes were analyzed. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
72 Samples

Download data: TXT

Series

Accession:: GSE239817

ID:: 200239817

PubMed Full text in PMC Similar studies

Select item 2002684986.

The endothelin-1-driven tumor-stroma feed-forward loops in high-grade serous ovarian cancer

(Submitter supplied) The high-grade serous ovarian cancer (HG-SOC) tumor microenvironment (TME) is constellated by cellular elements and a network of soluble constituents that contribute to tumor progression. In the multitude of the secreted molecules, the endothelin-1 (ET-1) has emerged to be implicated in the tumor/TME interplay, however the molecular mechanisms induced by the ET-1-driven feed-forward loops (FFL) and associated with the HG-SOC metastatic potential need to be further investigated. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL18573
12 Samples

Download data: TXT

Series

Accession:: GSE268498

ID:: 200268498

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000490227.

ARL11 Stable Expression in NHU-hTERT cells

(Submitter supplied) Analyses of the whole genome mRNA gene expression profiling performed on the normal urothelium cells with stably expressed ARL11 following serum starvation. The results revealed that TP53, RB1 and CDKN2A pathways were activated and the E2F1 and MYC pathways wer inhibitedin cells expressing ARL11. Cells expressing ARL11 also inhibited RAS pathway activation.

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL10558
6 Samples

Download data: TXT

Series

Accession:: GSE49022

ID:: 200049022

Analyze with GEO2R

Select item 2000490218.

Adenoviral Transduction of ARL11 in NHU-hTERT cells

(Submitter supplied) Analyses of the whole genome mRNA gene expression profiling performed on ARL11-transducted normal urothelium cells. The results revealed that TP53, RB1 and CDKN2A pathways were activated and the E2F1 and MYC pathways were inhibited in cells expressing ARL11. ARL11-transducted cells also inhibited RAS pathway activation.

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL10558
6 Samples

Download data: TXT

Series

Accession:: GSE49021

ID:: 200049021

Analyze with GEO2R

Select item 2002400479.

A Metabolic Switch Controlling Liver Cancer Evolution from Senescent NASH Hepatocytes

(Submitter supplied) Hepatocellular carcinoma (HCC), the third most common cancer, originates from differentiated hepatocytes undergoing compensatory proliferation in livers damaged primarily by viruses or nonalcoholic steatohepatitis (NASH)1,2. While increasing HCC risk3, NASH also induces TP53-dependent hepatocyte senescence4. How this tumor-suppressive response is activated but eventually bypassed to license HCC progression is unknown. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24247
30 Samples

Download data: TXT

Series

Accession:: GSE240047

ID:: 200240047

Select item 20027051510.

p53R172H and p53R245W Mutants Drive Distinct Transcriptomes in Mouse Mammary Tumors Through a Convergent Transcriptional Mediator

(Submitter supplied) Aggressive breast cancers harbor TP53 missense mutations. Tumor cells with TP53 missense mutations exhibit enhanced growth and survival through transcriptional rewiring. To delineate how TP53 mutations in breast cancer contribute to tumorigenesis and progression in vivo, we created a somatic mouse model driven by mammary epithelial cell-specific expression of Trp53 mutations. Mice developed primary mammary tumors reflecting the human molecular subtypes of Luminal A, Luminal B, HER2-enriched, and Triple Negative Breast Cancer with metastases. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL24247 GPL21103
18 Samples

Download data: TXT

Series

Accession:: GSE270515

ID:: 200270515

PubMed Full text in PMC Similar studies

Select item 20023601611.

GPR158 Activates Cellular Stress Responses in Trabecular Meshwork Cells of the Eye’s Aqueous Outflow Pathways: Implications for Ocular Hypertension

(Submitter supplied) Background: the major risk factor for glaucoma is ocular hypertension, a disorder caused by reduced outflow of aqueous humor through the trabecular meshwork. In a previous pharmacogenomic screen for genes associated with ocular hypertension, we identified the novel G protein-coupled receptor, GPR158, and showed it protects against age-related ocular hypertension in mice. Here we show that the glucocorticoid, dexamethasone, increases the level of accumulated GPR158 protein in the trabecular meshwork of the human eye, ex vivo. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL10558
36 Samples

Download data: DOCX, IDAT, TXT, XLSX

Series

Accession:: GSE236016

ID:: 200236016

Select item 20026137312.

Putting the STING back into BH3-mimetic drugs for TP53 mutant blood cancers

(Submitter supplied) TP53-mutant blood cancers remain a major clinical challenge. BH3-mimetic drugs inhibit BCL-2 pro-survival proteins to promote cancer cell apoptosis. Despite acting downstream of TP53, functional TP53 is required for maximal cancer cell killing by BH3-mimetics through an unknown mechanism. Here, we report TP53 can be activated following BH3-mimetic induced mitochondrial outer membrane permeabilization, which leads to induction of BH3-only proteins, thereby potentiating the pro-apoptotic signal. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL30172
28 Samples

Download data: TXT

Series

Accession:: GSE261373

ID:: 200261373

Select item 20026295113.

The TP53-activated E3 ligase RNF144B is a tumour suppressor that prevents genomic instability

(Submitter supplied) Background: TP53, the most frequently mutated gene in human cancers, orchestrates a complex transcriptional program crucial for cancer prevention. While certain TP53-dependent genes have been extensively studied, others, like the recently identified RNF144B, remained poorly understood. This E3 ubiquitin ligase has shown potent tumor suppressor activity in murine Eμ Myc-driven lymphoma, emphasizing its significance in the TP53 network. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17021
6 Samples

Download data: TXT

Series

Accession:: GSE262951

ID:: 200262951

PubMed Full text in PMC Similar studies

Select item 20025609214.

Proteogenomic Characterization Reveals Estrogen Signaling as a Target for Never-Smoker Lung Adenocarcinoma Patients without EGFR or ALK Alterations [MethylationEPIC]

(Submitter supplied) Never-smoker lung adenocarcinoma (NSLA) is prevalent in Asian populations, and is even more in women. EGFR mutations and ALK fusions are major alterations observed in NSLA. We have focused on NSLA without EGFR and ALK alteration (NENA) rather than NSLA with EGFR and ALK (EA). First, we selected 141 NSLA tissues, and performed proteogenomic analyses including the whole-genome sequencing (WGS), transcriptome, methylation EPIC array, total proteome and phosphoproteome. more...

Organism:: Homo sapiens

Type:: Methylation profiling by genome tiling array

Platform:: GPL21145
141 Samples

Download data: IDAT, TXT

Series

Accession:: GSE256092

ID:: 200256092

Select item 20025609115.

Proteogenomic Characterization Reveals Estrogen Signaling as a Target for Never-Smoker Lung Adenocarcinoma Patients without EGFR or ALK Alterations [RNA-seq]

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
141 Samples

Download data: TAB

Series

Accession:: GSE256091

ID:: 200256091

Analyze with GEO2R

Select item 20020269316.

Identifying transcriptional targets of ONECUT3 by RNAseq

(Submitter supplied) We report the direct target genes of the aberrant expression of ONECUT3 through next generation sequencing. We combine RNA-seq and ChIP-seq to identify target genes of ONECUT3 overexpression. RNA sequencing (RNA-seq) and chromatin immunoprecipitation sequencing (ChIP-seq) assays were performed on TP53-KO mouse embryonic fibroblast MEF with or without Doxycycline (100 ng/ml) to identify target genes both bound and regulated by ONECUT3. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL21626
6 Samples

Download data: XLSX

Series

Accession:: GSE202693

ID:: 200202693

Select item 20020268017.

Identifying transcriptional targets of ONECUT3 by ChIP-seq

Organism:: Mus musculus

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

Platform:: GPL17021
6 Samples

Download data: BW, NARROWPEAK

Series

Accession:: GSE202680

ID:: 200202680

PubMed Full text in PMC Similar studies

Select item 20024445218.

Targeting focal adhesion kinase boosts immune response in KRAS/LKB1 co-mutated lung adenocarcinoma via remodeling the tumor microenvironment

(Submitter supplied) Background: KRAS mutation is one of the most common oncogenic drivers in NSCLC, however, the response to immunotherapy is heterogeneous owing to the distinct co-occurring genomic alterations. KRAS/LKB1 co-mutated lung adenocarcinoma displays poor response to PD-1 blockade whereas the mechanism remains undetermined. Methods: We explored the specific characteristics of tumor microenvironment (TME) in KL tumors using syngeneic KRASG12DLKB1-/-(KL) and KRASG12DTP53-/- (KP) lung cancer mouse models. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24247
6 Samples

Download data: TXT

Series

Accession:: GSE244452

ID:: 200244452

PubMed Full text in PMC Similar studies

Select item 20022050719.

Orthotopic CRC organoid transplantation in mice: A novel model for the study and treatment of peritoneal carcinomatosis

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

Organism:: Homo sapiens; Mus musculus

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL24676 GPL24247
19 Samples

Download data: H5SEURAT

Series

Accession:: GSE220507

ID:: 200220507

PubMed Full text in PMC Similar studies

Select item 20022050620.

Orthotopic CRC organoid transplantation in mice: A novel model for the study and treatment of peritoneal carcinomatosis [Whole-tumor scRNA-Seq]

(Submitter supplied) Metastasized colorectal cancer (CRC) is associated with a poor prognosis and rapid disease progression. Besides hepatic metastasis, peritoneal carcinomatosis is the major cause of death in UICC stage IV CRC patients. Insights into differential site-specific reconstitution of tumor cells and the corresponding tumor microenvironment are still missing. Here, we analysed the transcriptome of single cells derived from murine multivisceral CRC and gave insight into the inter-metastatic cellular heterogeneity regarding tumor epithelium, stroma and immune cells. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24247
3 Samples

Download data: H5SEURAT

Series

Accession:: GSE220506

ID:: 200220506

PubMed Full text in PMC Similar studies

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