Limits...
The effect of Vdr gene ablation on global gene expression in the mouse placenta.

Buckberry S, Spronk F, Wilson RL, Laurence JA, Bianco-Miotto T, Leemaqz S, O'Leary S, Anderson PH, Roberts CT - Genom Data (2015)

Bottom Line: The effects of vitamin D are mediated through the vitamin D receptor (VDR), a predominantly nuclear receptor, expressed in numerous tissues including the placenta.VDR and the retinoid X receptor (RXR) form a dimer complex which binds to genomic vitamin D responsive elements located primarily in promoter regions and recruit cell-specific transcription factor complexes which regulate the expression of numerous genes.All raw array data are deposited in Gene Expression Omnibus (GEO) under accession GSE61583.

View Article: PubMed Central - PubMed

Affiliation: Robinson Research Institute, The University of Adelaide, School of Paediatrics and Reproductive Health, Adelaide, Australia.

ABSTRACT
The effects of vitamin D are mediated through the vitamin D receptor (VDR), a predominantly nuclear receptor, expressed in numerous tissues including the placenta. VDR and the retinoid X receptor (RXR) form a dimer complex which binds to genomic vitamin D responsive elements located primarily in promoter regions and recruit cell-specific transcription factor complexes which regulate the expression of numerous genes. To investigate the role of VDR on regulating placental gene expression, mice heterozygous (+/-) for an ablated Vdr allele (C57Bl6 strain B6.129S4-VDRtm1Mbd/J, Jackson Laboratory) were mated to generate Vdr(+/+), Vdr(+/-) and Vdr (-/-) fetuses and placental samples were collected at day 18.5 of pregnancy. RNA was isolated from placental tissue with global gene expression measured using Affymetrix Mouse Gene 2.1 ST Arrays to assess the effects of VDR on global gene expression in the placenta. All raw array data are deposited in Gene Expression Omnibus (GEO) under accession GSE61583.

No MeSH data available.


Related in: MedlinePlus

A. Density estimate distributions of un-normalised data. B. False colour heat map of distances between arrays. C. Boxplots representing summaries of the signal intensity distributions of the arrays, with each box corresponding to one array. D. Density plot showing the standard deviation of the intensities across arrays on the y-axis versus the rank of their mean on the x-axis. The red dots show the running median of the standard deviation.
© Copyright Policy - CC BY
Related In: Results  -  Collection

License
getmorefigures.php?uid=PMC4664714&req=5

f0005: A. Density estimate distributions of un-normalised data. B. False colour heat map of distances between arrays. C. Boxplots representing summaries of the signal intensity distributions of the arrays, with each box corresponding to one array. D. Density plot showing the standard deviation of the intensities across arrays on the y-axis versus the rank of their mean on the x-axis. The red dots show the running median of the standard deviation.

Mentions: Microarray quality control was carried out on the raw un-normalised using the ArrayQualityMetrics R package [2], which showed that there were no significant outlier samples and the data appeared to be of good quality (Fig. 1).


The effect of Vdr gene ablation on global gene expression in the mouse placenta.

Buckberry S, Spronk F, Wilson RL, Laurence JA, Bianco-Miotto T, Leemaqz S, O'Leary S, Anderson PH, Roberts CT - Genom Data (2015)

A. Density estimate distributions of un-normalised data. B. False colour heat map of distances between arrays. C. Boxplots representing summaries of the signal intensity distributions of the arrays, with each box corresponding to one array. D. Density plot showing the standard deviation of the intensities across arrays on the y-axis versus the rank of their mean on the x-axis. The red dots show the running median of the standard deviation.
© Copyright Policy - CC BY
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4664714&req=5

f0005: A. Density estimate distributions of un-normalised data. B. False colour heat map of distances between arrays. C. Boxplots representing summaries of the signal intensity distributions of the arrays, with each box corresponding to one array. D. Density plot showing the standard deviation of the intensities across arrays on the y-axis versus the rank of their mean on the x-axis. The red dots show the running median of the standard deviation.
Mentions: Microarray quality control was carried out on the raw un-normalised using the ArrayQualityMetrics R package [2], which showed that there were no significant outlier samples and the data appeared to be of good quality (Fig. 1).

Bottom Line: The effects of vitamin D are mediated through the vitamin D receptor (VDR), a predominantly nuclear receptor, expressed in numerous tissues including the placenta.VDR and the retinoid X receptor (RXR) form a dimer complex which binds to genomic vitamin D responsive elements located primarily in promoter regions and recruit cell-specific transcription factor complexes which regulate the expression of numerous genes.All raw array data are deposited in Gene Expression Omnibus (GEO) under accession GSE61583.

View Article: PubMed Central - PubMed

Affiliation: Robinson Research Institute, The University of Adelaide, School of Paediatrics and Reproductive Health, Adelaide, Australia.

ABSTRACT
The effects of vitamin D are mediated through the vitamin D receptor (VDR), a predominantly nuclear receptor, expressed in numerous tissues including the placenta. VDR and the retinoid X receptor (RXR) form a dimer complex which binds to genomic vitamin D responsive elements located primarily in promoter regions and recruit cell-specific transcription factor complexes which regulate the expression of numerous genes. To investigate the role of VDR on regulating placental gene expression, mice heterozygous (+/-) for an ablated Vdr allele (C57Bl6 strain B6.129S4-VDRtm1Mbd/J, Jackson Laboratory) were mated to generate Vdr(+/+), Vdr(+/-) and Vdr (-/-) fetuses and placental samples were collected at day 18.5 of pregnancy. RNA was isolated from placental tissue with global gene expression measured using Affymetrix Mouse Gene 2.1 ST Arrays to assess the effects of VDR on global gene expression in the placenta. All raw array data are deposited in Gene Expression Omnibus (GEO) under accession GSE61583.

No MeSH data available.


Related in: MedlinePlus