Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

59 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Stump project-- miRNA whole tissue; Volar versus non-volar acral skin gene expression

ABSTRACT: To broaden our understanding of the gene expression common to volar skin, we biopsied the dorsum of the hand, palm, dorsum of the foot and sole and collected miRNA for chip anlayses total of 16 skin biopsy samples with 4 repeats from distinct individuals of each site: dorsum of hand, palm, dorstum of foot and sole

ORGANISM(S): Homo sapiens

SUBMITTER: Luis Garza

PROVIDER: E-GEOD-38732 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Shared Molecules

Only show the datasets with similarity scores above: 0.5

Threshold

0.5

Similar Datasets

Stump project -- methylation whole tissue; volar versus non-volar acral skin gene expression

Project description:To broaden our understanding of the gene expression common to volar skin, we biopsied the dorsum of the hand, palm, dorsum of the foot and sole and collected DNA for methylation chip anlayses Total of 12 skin biopsy samples with 3 repeats from distinct individuals of each site: dorsum of hand, palm, dorstum of foot and sole. The samples below represent methylation data only.

2013-07-03 | E-GEOD-39131 | biostudies-arrayexpress

Stump project-- miRNA whole tissue; Volar versus non-volar acral skin gene expression

2013-07-03 | GSE38732 | GEO

Stump project -- methylation whole tissue; volar versus non-volar acral skin gene expression

2013-07-03 | GSE39131 | GEO

Stump project-- mRNA whole tissue; Volar versus non-volar acral skin gene expression

Project description:We were interesed in defining the gene signautre of volar skin. Whole skin punch biopsies of palms, backs of hand, soles and backs of feet were submitted for Affymetrix Exon arrays. 4 replicates of each site from distinct human donors were included; total of 16 samples analyzed.

2013-07-01 | E-GEOD-34756 | biostudies-arrayexpress

Stump project -- mRNA fibroblasts; Volar versus non-volar acral skin gene expression

Project description:We were interested in defining the gene signature of volar skin. Dermal fibroblasts were expanded from punch biopsies of skin. We collected RNA from fibroblasts of palms, backs of hand, soles and backs of feet and submitted for Affymetrix Exon arrays. 3 replicates of each site from distinct human donors were included; because of 1 failed sample(Palm_rep2), total of 11 samples analyzed

2013-07-03 | E-GEOD-39266 | biostudies-arrayexpress

Stump project -- mRNA epidermis; Volar versus non-volar acral skin gene expression

Project description:We were interested in defining the gene signature of volar skin. Punch biopsies of skin were split into epidermis and dermis after dispase treatment. We collected RNA from epidermis of palms, backs of hand, soles and backs of feet and submitted for Affymetrix Exon arrays. 3 replicates of each site from distinct human donors were included; total of 12 samples analyzed

2013-07-03 | E-GEOD-39267 | biostudies-arrayexpress

Stump project-- mRNA dermis; Volar versus non-volar acral skin gene expression

Project description:We were interested in defining the gene signature of volar skin. Punch biopsies of skin were split into epidermis and dermis after dispase treatment. We collected RNA from dermis of palms, backs of hand, soles and backs of feet and submitted for Affymetrix Exon arrays. 3 replicates of each site from distinct human donors were included; total of 12 samples analyzed

2013-07-03 | E-GEOD-39743 | biostudies-arrayexpress

In vitro gene signature of cultured volar or nonvolar keratinocytes

Project description:How cell and tissue identity persist despite constant cell turnover is an important biologic question with cell therapy implications. While many mechanisms exist, we investigated the controls for site-specific gene expression in skin given its diverse structures and functions. For example, the transcriptome of in vivo palmoplantar (i.e. volar) epidermis is globally unique including Keratin 9 (KRT9). While volar fibroblasts have the capacity to induce KRT9 in non-volar keratinocytes, we demonstrate here that volar keratinocytes continue to express KRT9 in vitro solo-cultures. Despite this, KRT9 expression is lost with volar keratinocyte passaging, in spite of stable hypo-methylation of its promoter. Coincident with KRT9 loss is a gain of the primitive Keratin 7 and a signature of dsRNA sensing, including the dsRNA receptor DDX58. Exogenous dsRNA inhibits KRT9 expression in early passage volar keratinocytes or in vivo footpads of wild-type mice. Loss of DDX58 in passaged volar keratinocytes rescues KRT9 and inhibits KRT7 expression. Additionally, DDX58 null mice are resistant to the ability of dsRNA to inhibit KRT9 expression. These results demonstrate that the sensing of dsRNA is critical for loss of cell specific gene expression; our results have important implications of how dsRNA sensing is important outside of immune pathways. Keratinocytes were expanded from both the sole and the dorsum of the foot and at passage 4, RNA was extracted and sent for microarray analysis

2018-07-20 | GSE116047 | GEO

Stump project-- mRNA dermis; Volar versus non-volar acral skin gene expression

Project description:We were interested in defining the gene signature of volar skin.

2013-07-03 | GSE39743 | GEO

Stump project -- mRNA epidermis; Volar versus non-volar acral skin gene expression

Project description:We were interested in defining the gene signature of volar skin.

2013-07-03 | GSE39267 | GEO