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Characterisation of VDR signaling in prostate cancer health disparities (RNA-Seq; BAZ1A conditional)

ABSTRACT: To investigate the effect of 1,25(OH)2D3 activation on RNA expression in prostate cell lines derived from European Americans and African Americans

ORGANISM(S): Homo sapiens

PROVIDER: GSE223405 | GEO | 2023/01/31

REPOSITORIES: GEO

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Characterisation of VDR signaling in prostate cancer health disparities (ATAC-Seq)

Project description:To investigate the effect of 1,25(OH)2D3 activation on chromatin accessabilty in prostate cell lines derived from European Americans and African Americans

2023-01-16 | GSE221708 | GEO

Characterisation of VDR signaling in prostate cancer health disparities (RNA-Seq)

Project description:To investigate the effect of 1,25(OH)2D3 activation on RNA expression in prostate cell lines derived from European Americans and African Americans

2023-01-16 | GSE221690 | GEO

Characterisation of VDR signaling in prostate cancer health disparities (ChIP-Seq)

Project description:To investigate the effect of 1,25(OH)2D3 activation on VDR genomic binding in prostate cell lines derived from European Americans and African Americans

2023-01-16 | GSE221826 | GEO

Characterisation of VDR signaling in prostate cancer health disparities (small RNA-Seq)

Project description:To investigate the effect of 1,25(OH)2D3 activation on small RNA expression in prostate cell lines derived from European Americans and African Americans

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Vitamin D receptor (VDR) target genes in THP-1 monocytic leucemia cells

Project description:The biologically active form of vitamin D, 1,25-dihydroxyvitamin D3 (1,25(OH)2D3), is a direct regulator of gene transcription, since it is the only high affinity natural ligand of the transcription factor vitamin D receptor (VDR). Transcriptome-wide analysis of THP-1 human monocyte-like cells had indicated more than 600 genes to be significantly (p < 0.05) regulated after a 4 h stimulation with 1,25(OH)2D3. In this study, we screened of the list of primary vitamin D targets for genes encoding for transcriptional regulators and selected those of the activating transcription factor NFE2 and the transcriptional repressor BCL6. Both genes are under the control of two VDR loci and are the only 1,25(OH)2D3 targets within their respective chromosomal domain. However, NFE2 mRNA was rapidly up-regulated, while the increase of BCL6 expression showed a slower rise. After 24 h incubation of THP-1 cells with 1,25(OH)2D3 more than 1,500 genes responded significantly (p < 0.001), of which 132 where more than 2-fold induced. Public chromatin immunoprecipitation-sequencing datasets suggested that the majority of these genes could be targets of NFE2 or BCL6. In time course experiments we displayed for representative gene examples the specific delayed response of secondary 1,25(OH)2D3 targets and confirmed for the respective chromosomal domains the genomic binding of NFE2, BCL6 and VDR. In conclusion, our study indicated that the physiological response of monocytes to 1,25(OH)2D3 involves the action of NFE2 and BCL6. THP-1 cells were treated 24 h either with 0.1% ethanol (vehicle, control) or 1?,25(OH)2D3 (1,25D)

2015-04-26 | E-GEOD-60102 | biostudies-arrayexpress

Vitamin D receptor (VDR) target genes in THP-1 monocytic leucemia cells

2015-04-26 | GSE60102 | GEO

VDR ChIP-seq in human monocytic THP-1 cells

Project description:ChIP-seq for VDR in THP-1 cells after stimulation with the the natural VDR ligand 1,25-dihydroxyvitamin D3 (1,25(OH)2D3)

2017-07-18 | GSE89431 | GEO

mRNA-seq in VDR knockout and control THP-1 cells

Project description:The vitamin D receptor (VDR) has been knocked out in monocytic THP-1 cells after stimulation of ko and control cells with the the natural VDR ligand 1,25-dihydroxyvitamin D3 (1,25(OH)2D3), quadruplicate mRNA-seq has been performed

2021-09-06 | GSE157514 | GEO

1,25(OH)2D3 and VDR, Open chromatin

Project description:1,25(OH)2D3 and VDR, Open chromatin

| PRJNA789669 | ENA

Extensive ChIP-seq analysis for VDR, pCREB, H3K4me1, H3K9ac, H3K36me3 from kidney, thyroparathyroid (TPTG), and peripheral blood monocytes (pBMCs) from wildtype (C57BL/6), M1-IKO, M21-IKO, VDR-KO, and Cyp27b1-KO mice.

Project description:ChIP-seq was performed in triplicate on isolated tissues (kidney, thyroparathyroid (TPTG), peripheral blood monocytes) from hormone treated (vehicle, 1,25(OH)2D3, FGF23, or PTH) mice from wildtype (WT), M1-IKO, M21-IKO, VDR-KO, or Cyp27b1-KO mice as indicated in the sample listings. The pBMC samples were isolated from untreated mice and subsequently treated ex vivo in cell culture with the indicated concentrations of 1,25(OH)2D3 or forskolin. Studies are published under PMID 28808057 and PMID 31053643.

2019-06-20 | GSE133025 | GEO

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