The acute effects of ultraviolet radiation on the blood transcriptome are independent of plasma 25OHD3

Published: 14-09-2017| Version 1 | DOI: 10.17632/snwxktgxpz.1
Contributors:
Mariona Bustamante,
Carles Hernandez-Ferrer,
Yaris Sarria,
Graham I. Harrison,
Lara Nonell,
Wenjing Kang,
Marc R. Friedländer,
Xavier Estivill,
Juan R. González,
Mark Nieuwenhuijsen,
Antony R. Young

Description

Blood gene and miRNA expression before (0h) and after (6h, 24h and 48h) exposure to whole body ultraviolet radiation. Data in "ICE_blood_data_Mendeley.xlsx" file, contains: - Sheet "mRNAseq_samples": samples after QC in the mRNAseq analysis - Sheet "mRNAseq_expr_matrix": gene expression - mRNAseq non normalized counts - Sheet "small RNAseq_samples": samples after QC in the small RNAseq analysis - Sheet "small_RNAseq_matrix": miRNA expression - small RNAseq non normalized counts

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Steps to reproduce

Design: -9 male volunteers skin type I/II, from UK -UVR expsoure: -- whole body fluorescent solar simulated radiation (FSSR) -- dose: 2.5 - 3 standard erythema dose (SED) -- 5 in March-April and 4 in July-September -blood collected at 0h (unexposed), 6h, 24h and 48h RNA: -Blood collected in PAXGene tubes -RNA extraction with PAXgene blood RNA kit (Qiagen, Hilden, Germany) Sequencing: -TruSeq RNA Sample Prep Kit v2 (mRNA) (Illumina, San Diego, California, USA) -TruSeq Small RNA Sample Prep Kit (small RNA) (Illumina, San Diego, California, USA) mRNAseq QC: -Mapping with R package Rsubread, allowing a maximum of 5 mismatches and using the hs37d5 as reference. -Gene annotation with NCBI hg19 (Entrez Gene) database. -Sample size after QC: 36 miRNAseq QC: -As previously described (Lappalainen et al., 2013). -Sample size after QC: 35 (one excluded because contaminated) Differential analysis: -R package DESeq2 v.1.10.1