Vitamin D receptor ChIP-seq in primary CD4+ cells: relationship to serum 25-hydroxyvitamin D levels and autoimmune disease
Vitamin D receptor ChIP-seq in primary CD4+ cells: relationship to serum 25-hydroxyvitamin D levels and autoimmune disease
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DOI：
10.1186/1741-7015-11-163
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发表时间：
2013-07-12
期刊：
影响因子：
9.3
通讯作者：
Ramagopalan, Sreeram V.
中科院分区：
文献类型：
--
作者：
Handel, Adam E.;Sandve, Geir K.;Ramagopalan, Sreeram V.
背景：维生素 D 不足与自身免疫有关。使用免疫细胞系的 ChIP-seq 实验表明，维生素 D 受体 (VDR) 结合位点在与自身免疫性疾病相关的基因组区域附近富集。我们的目的是研究来自健康志愿者的原代 CD4+ 细胞中的 VDR 结合。方法：我们从 9 名健康志愿者中提取 CD4+ 细胞。每个样本均经过 VDR ChIP-seq。我们的结果根据 Genomic HyperBrowser 中发布的 ChIP-seq 和 RNA-seq 数据进行了分析。我们使用 MEMEChIP 进行从头基序发现。使用液相色谱-串联质谱法测量 25-羟基维生素 D 水平，并将样品分为维生素 D 充足 (25(OH) D >= 75 nmol/L) 和不足/缺乏 (25(OH) D = 75：3.13 倍，P
Background: Vitamin D insufficiency has been implicated in autoimmunity. ChIP-seq experiments using immune cell lines have shown that vitamin D receptor (VDR) binding sites are enriched near regions of the genome associated with autoimmune diseases. We aimed to investigate VDR binding in primary CD4+ cells from healthy volunteers.Methods: We extracted CD4+ cells from nine healthy volunteers. Each sample underwent VDR ChIP-seq. Our results were analyzed in relation to published ChIP-seq and RNA-seq data in the Genomic HyperBrowser. We used MEMEChIP for de novo motif discovery. 25-Hydroxyvitamin D levels were measured using liquid chromatography-tandem mass spectrometry and samples were divided into vitamin D sufficient (25(OH) D >= 75 nmol/L) and insufficient/deficient (25(OH) D = 75: 3.13-fold, P