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| Status |
Public on Jun 22, 2021 |
| Title |
Scottish Colorectal Cancer Vitamin D Intervention Study (SCoViDS) [RNA-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
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.
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| |
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| Overall design |
98 rectal biopsy from 49 Patient's taken pre and post (12 weeks) oral vitamin D supplementation
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| Contributor(s) |
Grimes GR, Vaughan-Shaw PG |
| Citation(s) |
34340708 |
| |
| Submission date |
Sep 15, 2020 |
| Last update date |
Oct 18, 2022 |
| Contact name |
Graeme Richard Grimes |
| E-mail(s) |
graeme.grimes@ed.ac.uk
|
| Organization name |
University of Edinburgh, The Institute of Genetics and Cancer
|
| Department |
Human Genetics Unit
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| Lab |
Bioinformatics Analysis Core
|
| Street address |
Western General Hospital, Crewe Road
|
| City |
Edinburgh |
| ZIP/Postal code |
EH4 2XU |
| Country |
United Kingdom |
| |
|
| Platforms (1) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
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| Samples (98)
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| This SubSeries is part of SuperSeries: |
| GSE157984 |
Scottish Colorectal Cancer Vitamin D Intervention Study (SCoViDS) |
|
| Relations |
| BioProject |
PRJNA663578 |
| SRA |
SRP282468 |
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