Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Scottish Colorectal Cancer Vitamin D Intervention Study (SCoViDS) [RNA-seq]

ABSTRACT: Scottish Colorectal Cancer Vitamin D Intervention Study (SCoViDS) [RNA-seq]

PROVIDER: PRJNA663578 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR12643500_1.fastq.gz	Fastqsanger.gz
	SRR12643500_2.fastq.gz	Fastqsanger.gz
	SRR12643600_1.fastq.gz	Fastqsanger.gz
	SRR12643600_2.fastq.gz	Fastqsanger.gz
	SRR12643700_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 980

Similar Datasets

Scottish Colorectal Cancer Vitamin D Intervention Study (SCoViDS)

Project description:Scottish Colorectal Cancer Vitamin D Intervention Study (SCoViDS)

| PRJNA663581 | ENA

Scottish Colorectal Cancer Vitamin D Intervention Study (SCoViDS) [RNA-seq]

Project description:Controversy surrounds whether vitamin D reduces colorectal cancer (CRC) risk, and/or beneficially impacts on CRC survival. We sought to delineate the transcriptomic in vivo response of human colorectal epithelium to vitamin D supplementation, define inter-subject variability and develop a predictive biomarker of response consistent with anti-tumour effects. Methodology Blood and rectal normal mucosa (NM) were sampled (176 subjects) and correlation sought between circulating vitamin D (25-OHD) level and NM gene expression (HT12 microarray) in the observational study. Oral vitamin D (3200IU/day) supplements were administered to 50 participants in an intervention study. Blood and NM (sigmoidoscopic biopsy) were sampled after 12 weeks. Transcriptomic analysis (HT12 and RNAseq) of post-treatment biopsies assessed enrichment for candidate genes and GO processes prioritised in the observational study. We identified transcriptomic changes in rectum that are consistent with anti-tumour responses. We then sought blood biomarkers predicting this response using receiver-operator curves and calculation of C-statistic. An independent expression dataset (BEST-D trial) was then used to validate candidate blood biomarkers of vitamin D response.

2021-06-22 | GSE157982 | GEO

Scottish Colorectal Cancer Vitamin D Intervention Study (SCoViDS)

Project description:This SuperSeries is composed of the SubSeries listed below.

2021-06-23 | GSE157984 | GEO

Scottish Vitamin D Intervention Study

Project description:AIMS To identify the underlying mechanism by which Vitamin D reduces colorectal cancer risk. OBJECTIVES To demonstrate the effects of vitamin D supplementation on serum vitamin D levels. To demonstrate dynamic changes in gene expression in response to vitamin D. To demonstrate the mechanism underlying the gene-environment interaction of vitamin D, susceptibility genetic variants (risk genes) and colorectal cancer.

| 2376099 | ecrin-mdr-crc

Tennessee Colorectal Polyp Study

Project description:Tennessee Colorectal Polyp Study

| PRJNA788585 | ENA

Hispanic Colorectal Cancer Study

Project description:Hispanic Colorectal Cancer Study

| PRJNA339338 | ENA

Tennessee Colorectal Polyp Study

Project description:Tennessee Colorectal Polyp Study

| PRJNA788615 | ENA

Vitamin D receptor expression and associated gene signature in tumor stromal fibroblasts predict clinical outcome in colorectal cancer

Project description:Colorectal cancer (CRC) is a major cause of cancer mortality and a serious health concern worldwide. Vitamin D deficiency is associated with high CRC incidence and mortality, suggesting a protective effect of vitamin D against this neoplasia. Although the antiproliferative and prodifferentiation action of active vitamin D (1alpha,25-dihydroxyvitamin D3, 1,25(OH)2D3) on colon carcinoma cells is well documented, its potential effects on CRC stroma are unknown. Here, we show that high vitamin D receptor (VDR) expression in tumor stromal fibroblasts is associated with better overall and progression-free survival in a large cohort of CRC patients, irrespective of its expression in carcinoma cells. Consistently, 1,25(OH)2D3 inhibits the activation of patient-derived normal and cancer-associated fibroblasts, and their pro-migratory effect on carcinoma cells. Importantly, we show by global transcriptomic analyses that 1,25(OH)2D3 regulates cancer-associated fibroblast gene expression and imposes a gene signature that is associated with longer overall and disease-free survival of CRC patients. Moreover, expression of two genes from the signature, CD82 and S100A4, correlates with stromal VDR expression and clinical outcome in CRC. This study provides the first evidence that vitamin D has protective effects against CRC through the regulation of stromal fibroblasts. Characterization of 1,25(OH)2D3 action on gene expression in primary cultures of colon normal and tumor fibroblasts established from samples from colorectal cancer patients. RNA from seven paired normal and tumor fibroblast primary cultures treated with 1,25(OH)2D3 or vehicle for 48 h were analyzed.

2016-04-07 | E-GEOD-70468 | biostudies-arrayexpress

Effects of vitamin D supplementation on alveolar macrophage gene expression

Project description:The objective of the overall study was to determine the effects of oral vitamin D supplementation on alveolar macrophages from human subjects. In this substudy, subjects treated with vitamin D (intervention group) in paired analysis had small, but significant effects on immune-related differential gene expression pre versus post supplementation. In this study, we obtained alveolar macrophages by bronchoalveolar lavage of subjects before and after a 3 month vitamin D trial. RNA for the array was obtained shortly after bronchoscopy. Randomized Controlled Trial: This is a substudy of paired samples of subjects treated with vitamin D. Each sample was studied once. 22 individuals were studied.

2014-04-08 | E-GEOD-56583 | biostudies-arrayexpress

Effects of vitamin D supplementation on alveolar macrophage gene expression

2014-04-08 | GSE56583 | GEO