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Links from GEO DataSets

Items: 20

1.

Time course of 1,25(OH)2D treated RWPE1 cells.

(Submitter supplied) Background: Prostate cancer is the second leading cause of cancer mortality among US men. Epidemiological evidence suggests that high vitamin D status protects men from prostate cancer and the active form of vitamin D, 1α,25 dihydroxyvitamin D3 (1,25(OH)2D) has anti-cancer effects in cultured prostate cells. Still, the molecular mechanisms and the gene targets for vitamin D-mediated prostate cancer prevention are unknown. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Dataset:
GDS3761
Platform:
GPL570
24 Samples
Download data: CEL
Series
Accession:
GSE15947
ID:
200015947
2.
Full record GDS3761

1,25 dihydroxyvitamin D effect on prostate epithelial cell line RWPE1: time course

Analysis of RWPE1 cells, an immortalized, non-tumorigenic prostate epithelial cell line, treated with 1,25(OH)2D (i.e., the active form of vitamin D), for up to 48 hrs. RWPE1 cells are growth arrested by 1,25(OH)2D. Results provide insight into the role of vitamin D in prostate cancer prevention.
Organism:
Homo sapiens
Type:
Expression profiling by array, transformed count, 2 agent, 3 time sets
Platform:
GPL570
Series:
GSE15947
24 Samples
Download data: CEL
3.

Expression/miRNA Profiling of Androgen Receptor and Vitamin D Receptor Mediated Signaling in Prostate Cancer Cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by array; Expression profiling by array
Platforms:
GPL8971 GPL10850
28 Samples
Download data: CALLS, PAIR, TIFF, TXT
Series
Accession:
GSE23815
ID:
200023815
4.

miRNA Profiling of Androgen Receptor and Vitamin D Receptor Mediated Signaling in Prostate Cancer Cells

(Submitter supplied) Studies of miRNA profiles using Agilent Human miRNA arrays.
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by array
Platform:
GPL10850
16 Samples
Download data: TIFF, TXT
Series
Accession:
GSE23814
ID:
200023814
5.

Expression Profiling of Androgen Receptor and Vitamin D Receptor Mediated Signaling in Prostate Cancer Cells

(Submitter supplied) Studies of gene expression profiles using the whole genomewide microarray analysis in LNCaP cells (AR+, p53wt) when treated with 5nM testosterone and 100nM 1,25(OH)2D3 alone or in combination. Comparisons between each treatment groups provide evidence for the crosstalk between VDR and AR mediated signaling events at the transcriptional levels, which may have significant clinical impact in patient care.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL8971
12 Samples
Download data: CALLS, PAIR, TIFF
Series
Accession:
GSE17461
ID:
200017461
6.

Genome wide VDR binding sites in RWPE1 human prostate epithelial cells

(Submitter supplied) Signaling through the vitamin D receptor (VDR) has been proposed to suppress the development of epithelial cancers, including prostate cancer. We conducted ChIP-seq to identify the VDR binding sites in the genome of the prostate epithelial cell line, RWPE1. This analysis reveals a large number of VDR binding sites in both control cells and in cells treated with 10 nM 1,25 dihydroxyvitamin D3 for 3 hours. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9115
6 Samples
Download data: TDF, XLSX
Series
Accession:
GSE116843
ID:
200116843
7.

Microarray analysis of PIN lesions from APT121 mouse prostate

(Submitter supplied) High grade prostate intraepithelial neoplasia (HGPIN) is a precursor lesion for prostate cancer. The APT121 mouse is a model of early stage prostate cancer that develops PIN lesions that progress to adenocarcinoma over a period of 6 months. At 12 wks of age APT121 mouse prostate contains mostly high grade PIN lesions. We compared the transcript profile of RNA from the anterior prostate of age- and genetic background matched wild type and APT121 mice using Affymetric microarrays.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6246
12 Samples
Download data: CEL
Series
Accession:
GSE50662
ID:
200050662
8.

Expression profiles from mouse prostate progenitor/stem cells treated with ethanol or 100nM 1,25 dihydroxyvitamin D3

(Submitter supplied) A major goal in prostate stem cell biology is to identify genes, pathways, or networks that control self-renewal and multilineage differentiation. We hypothesize that 1,25 dihydroxyvitamin D3 can induce differentiation of prostatic progenitor/stem cells, thus serving as an in vitro model with which to study the molecular mechanisms of stem cell differentiation by 1,25 dihydroxyvitamin D3. 1,25 dihydroxyvitamin D3 elicits its effects primarily through transcriptional regulation of genes, so microarray studies were used to gain insight into the cellular response to 1,25 dihydroxyvitamin D3. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
13 Samples
Download data: CEL
Series
Accession:
GSE18993
ID:
200018993
9.

Comprehensive Characterization of 3D Models for Prostate Cancer Growth and Invasion in Laminin-rich Extracellular Matrix

(Submitter supplied) Full title: Comprehensive Characterization of Three-Dimensional Models for Prostate Cancer Growth and Invasion in Laminin-rich Extracellular Matrix Prostate Cancer (PrCa) cells undergo acinar morphogenesis and spheroid formation in three-dimensional (3D) culture, supported by laminin-rich extracellular matrix (lrECM, Matrigel). We developed miniaturized 3D model systems that facilitate investigation of morphogenesis and invasion of normal and PrCa cell lines in lrECM. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL6883
54 Samples
Download data: TXT
Series
Accession:
GSE19426
ID:
200019426
10.

Expression data from brain tissue of Rattus norvegicus treated with D-Serine

(Submitter supplied) d-serine is naturally present throughout the human body. It is also used as add-on therapy for treatment-refractory schizophrenia. d-Serine interacts with the strychnine-insensitive glycine binding site of NMDA receptor, and this interaction could lead to potentially toxic activity (i.e., excitotoxicity) in brain tissue. The transcriptomic changes that occur in the brain after d-serine exposure have not been fully explored. more...
Organism:
Rattus norvegicus
Type:
Expression profiling by array
Dataset:
GDS3643
Platform:
GPL1355
24 Samples
Download data: CEL
Series
Accession:
GSE10748
ID:
200010748
11.
Full record GDS3643

D-serine effect on the brain: dose response

Analysis of forebrains of animals treated with up to 500 mg/kg D-serine for 96 hours. D-serine is involved in many physiological processes through its interaction with the glycine binding site of the NMDA receptor. Results provide insight into the impact of D-serine exposure on neuronal functions.
Organism:
Rattus norvegicus
Type:
Expression profiling by array, count, 2 agent, 6 dose sets
Platform:
GPL1355
Series:
GSE10748
24 Samples
Download data: CEL
DataSet
Accession:
GDS3643
ID:
3643
12.

Human Corneal Epithelial Cells (SV40-HCEC) 6h Treatment with 100nM Vitamin D (1,25D3) vs. Vehicle Control

(Submitter supplied) Inflammatory signals must be regulated and kept in check in order to prevent tissue damage.  This is especially true in the cornea, where damage can induce loss of transparency, essential for vision.  Toll-like receptors (TLRs) are present at the ocular surface and, in addition to being protective against infection, have also been implicated in the pathogenesis of dry eye syndrome, an inflammatory condition that affects millions of individuals in the United States each year.   Therefore, an important area of research is the development of new anti-inflammatory therapeutics that limit aberrant ocular surface inflammation.  Vitamin D has been studied for its role in suppressing inflammation in other tissues.  In previous studies, we have demonstrated that vitamin D is able to decrease proinflammatory mediators induced by TLRs in human corneal epithelial cells (HCEC).  Therefore, the goal of the current study was to examine this mechanism further through an evaluation of vitamin D’s influence on gene expression in two different HCEC cell lines. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL20164
2 Samples
Download data: GPR, TXT
Series
Accession:
GSE72663
ID:
200072663
13.

Human Corneal Epithelial Cells (hTCEpi) 6h Treatment with 100nM Vitamin D (1,25D3) vs. Vehicle Control

(Submitter supplied) Inflammatory signals must be regulated and kept in check in order to prevent tissue damage. This is especially true in the cornea, where damage can induce loss of transparency, essential for vision. Toll-like receptors (TLRs) are present at the ocular surface and, in addition to being protective against infection, have also been implicated in the pathogenesis of dry eye syndrome, an inflammatory condition that affects millions of individuals in the United States each year. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL20164
2 Samples
Download data: GPR, TXT
Series
Accession:
GSE72662
ID:
200072662
14.

Short-term time course of the effects of 1α,25-dihydroxyvitamin D3 treatment on open chromatin regions in THP-1 monocytic leukemia cells

(Submitter supplied) Open chromatin regions have been shown to associate with the location of transcriptiotal enhancers, i.e., the binding locations of DNA-binding transcription factors. To investigate the effects of short-term treatment by the nuclear hormone 1α,25-dihydroxyvitamin D3 (VD), a specific ligand of the transcription factor vitamin D receptor, on chromatin accessibility, FAIRE-seq was utilized on the chromatin samples from THP-1 monocytic leukemia cells that were treated with 100 nM 1α,25-dihydroxyvitamin D3 for 20, 40, 60, 80, 100 and 120 min, or with vehicle (0.1% (v/v) ethanol) for 20 and 100 min.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9115
9 Samples
Download data: BED
Series
Accession:
GSE40075
ID:
200040075
15.

Androgen dependent gene expression profiling of the urogenital sinus

(Submitter supplied) Cancer cells differentiate along specific lineages that largely determine their clinical and biologic behavior. Distinct cancer phenotypes from different cells and organs likely result from unique gene expression repertoires established during lineage commitment in the embryo and maintained after malignant transformation. We used comprehensive gene expression analysis to examine this concept in the prostate, an organ with a readily manipulable developmental program and a high propensity for cancer. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL7042
24 Samples
Download data: TXT
Series
Accession:
GSE12077
ID:
200012077
16.

Time-Resolved Gene Expression Analysis Monitors the Regulation of Inflammatory Mediators and Attenuation of Adaptive Immune Response by Vitamin D

(Submitter supplied) In this study, we focused on the time-course of transcriptional changes in freshly isolated human PBMCs 4, 8, 24 and 48 h after onset of stimulation with the active vitamin D metabolite 1α,25-dihydroxyvitamin D3 (1,25(OH)2D3) compared to vehicle (0.1% EtOH).
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
24 Samples
Download data: XLSX
17.

Vitamin D treatment induces in vitro and ex vivo transcriptomic changes indicating anti-tumour effects

(Submitter supplied) AIM Vitamin D deficiency is associated with risk of several common cancers, including colorectal cancer (CRC). We investigated the effects of vitamin D on in vitro and ex vivo epithelial cell gene expression and assessed dysregulation of pathways involved in anti-tumour effects. METHODS We performed in vitro and ex vivo intervention studies using established CRC cell lines and patient-derived epithelial organoids developed from normal human colonic (resectional colorectal surgery) and rectal mucosa (rectal biopsy). more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL10558
18 Samples
Download data: TXT
Series
Accession:
GSE181644
ID:
200181644
18.

Spatially resolved gene expression of human protate tissue slices treated with steroid hormones for 8 hours

(Submitter supplied) Spatially resolved gene expression was prepard by dissociated hman prostate tissue to single cells, and collected & prepped for RNA-seq using the Visium Spatial Gene Expression kit. 5000 cells were collected and sequenced at a depth of 50k cells/gene on a 2X150nt lane in a NovaSeq 6000. SpaceRanger alignment was performed to produce the RAW files
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
2 Samples
Download data: H5, JSON, MTX, TIFF, TSV
Series
Accession:
GSE159697
ID:
200159697
19.

Single cell analysis of primary prostate human epithelial organoids grown in vehicle or 1,25D to day 8 and day 14

(Submitter supplied) Primary prostate epithelial cells derived from a single patient were grown as organoids in vehicle or 10nM 1,25D (vitamin D). At day 8 and day 14 of culture, organoids were dissociated to single cells, and collected & prepped for RNA-seq using the 10x Genomics Chromium Genome Reagent kit v3 Chemistry. ~5,000 cells were collected from each sample and sequenced at a depth of ~50,000 genes per cells on a 2x150nt lane in a NovaSeq 6000. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
4 Samples
Download data: MTX, TSV
Series
Accession:
GSE142489
ID:
200142489
20.

Vitamin D receptor ChIP-Seq in primary prostate epithelial cells

(Submitter supplied) We investigated the genomic activity of vitamin D in primary prostate epithelial cells (PrE) through vitamin D receptor (VDR)-ChIP-sequencing. PrE cells treated with 50 nM 1,25D showed nuclear localization the VDR within 1 hr, persisting until 4 hr, and a 2 hr treatment was selected for ChIP-seq. Rigorous testing of the ChIP conditions and VDR antibody were performed. Nearly 5,000 VDR binding sites were identified.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL16791
4 Samples
Download data: BED
Series
Accession:
GSE124576
ID:
200124576
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