Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

5' droplet-based single cell RNA sequencing of human colorectal cancer and normal organoids

ABSTRACT: 5' droplet-based single cell RNA sequencing of human colorectal cancer and normal organoids

PROVIDER: PRJNA595931 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

5' droplet-based single cell RNA sequencing of human colorectal cancer and normal organoids

Project description:Using 5' droplet-based single cell sequencing, we profiled single cells dervied from human colorectal cancer organoids carrying either APC mutation or RSPO fusion, and paired normal colon organoids for the later.

2020-03-31 | GSE142116 | GEO

5' droplet-based single cell RNA sequencing of human gastrointestinal organoids and Intestinal Metaplasia (IM) organoids [scRNA-seq]

Project description:Using 5' droplet-based single cell sequencing, we profiled single cells dervied from human gastric, intestinal and IM organoids.

2024-10-15 | GSE210991 | GEO

3' droplet-based single cell RNA sequencing of a human small intestinal tissue and human small intestinal organoids

Project description:Using 3' droplet-based single cell sequencing, we profiled single cells derived from a fresh human small intestinal epithelial tissue and human small intestinal organoids cultured with either IGF1/FGF2 or EGF/p38i.

2018-12-06 | GSE119969 | GEO

Expression data of cultured organoids derived from human colorectal tumors and normal samples.

Project description:We analyzed gene expression of 58 line patinet-derived colorectal tumors and normal organoids.

2016-05-26 | GSE74843 | GEO

5' droplet-based single cell RNA sequencing of human gastrointestinal organoids and Intestinal Metaplasia (IM) organoids [scRNA-seq]

Project description:5' droplet-based single cell RNA sequencing of human gastrointestinal organoids and Intestinal Metaplasia (IM) organoids [scRNA-seq]

| PRJNA868482 | ENA

Metabolic Drug Response Phenotyping in Colorectal Cancer Organoids by LC-QTOF-MS

Project description:As metabolic rewiring is crucial for cancer cell proliferation, metabolic phenotyping of patient-derived organoids is desirable to identify drug-induced changes and trace metabolic vulnerabilities of tumor subtypes. We established a novel protocol for metabolomic and lipidomic profiling of colorectal cancer organoids by LC-QTOF-MS facing the challenge of capturing metabolic information from minimal sample amount (< 500 cells/injection) in the presence of extracellular matrix (ECM). The best procedure of the tested protocols included ultrasonic metabolite extraction with acetonitrile/methanol/water (2:2:1, v/v/v) without ECM removal. To eliminate ECM-derived background signals, we implemented a data filtering procedure based on p-value and fold change cut-offs which retained features with signal intensities >120% compared to matrix-derived signals present in blank samples. As a proof-of-concept, the method was applied to examine the early metabolic response of colorectal cancer organoids to 5-fluorouracil treatment. Statistical analysis revealed dose-dependent changes in the metabolic profiles of treated organoids including elevated levels of 2'-deoxyuridine, 2'-O-methylcytidin, inosine and 1-methyladenosine and depletion of 2'-deoxyadenosine and specific phospholipids. In accordance with the mechanism of action of 5-fluorouracil, changed metabolites are mainly involved in purine and pyrimidine metabolism. The novel protocol provides a first basis for the assessment of metabolic drug response phenotypes in 3D organoid models.

2021-10-12 | MTBLS2130 | MetaboLights