Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Transcriptomic analysis of human retinal detachment (RD) reveals both inflammation and photoreceptor death

ABSTRACT: We have used surgical specimens to perform a differential analysis of the transcriptome of human retinal tissues following detachment. Data analysis reveals major involvement of the immune response in the disease and interindividual variation was monitored to unravel a second crucial aspect of the pathological process, the death of photoreceptor cells. In total 38 surgical specimens (samples) were analyzed, 19 represent biopsies from patients with retinal detachment (RD) and 19 represent contral samples without retinal detachment.

ORGANISM(S): Homo sapiens

SUBMITTER: Wolfgang Raffelsberger

PROVIDER: E-GEOD-28133 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Transcriptomic analysis of human retinal detachment reveals both inflammatory response and photoreceptor death.

Delyfer Marie-Noëlle MN Raffelsberger Wolfgang W Mercier David D Korobelnik Jean-François JF Gaudric Alain A Charteris David G DG Tadayoni Ramin R Metge Florence F Caputo Georges G Barale Pierre-Olivier PO Ripp Raymond R Muller Jean-Denis JD Poch Olivier O Sahel José-Alain JA Léveillard Thierry T

PloS one 20111209 12

<h4>Background</h4>Retinal detachment often leads to a severe and permanent loss of vision and its therapeutic management remains to this day exclusively surgical. We have used surgical specimens to perform a differential analysis of the transcriptome of human retinal tissues following detachment in order to identify new potential pharmacological targets that could be used in combination with surgery to further improve final outcome.<h4>Methodology/principal findings</h4>Statistical analysis rev ...[more]

PMID: 22174898

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Project description:Epidermis, a continuously self-renewing and differentiating organ, produces a protective stratum corneum that shields us from external chemical, physical and microbial threats. Epidermal differentiation is a multi-step process regulated by influences, some unknown, others insufficiently explored. Detachment of keratinocytes from the basement membrane is one such pro-differentiation stimulus. Here, we define the transcriptional changes during differentiation, especially those caused by detachment from the substratum. Using comprehensive transcriptional profiling, we revisited the effects of detachment as a differentiation signal to keratinocytes. We identified the genes regulated by detachment, the corresponding ontological categories and, using metaanalysis, compared the genes and categories to those regulated by other pro-differentiating stimuli. We identified 762 genes overexpressed in suspended keratinocyte, including known and novel differentiation markers, and 1427 in attached cells, including basal layer markers. Detachment induced epidermis development, cornification and desmosomal genes, but also innate immunity, proliferation inhibitors, transcription regulators and MAPKs; conversely the attached cells overexpressed cell cycle, anchoring, motility, splicing and mitochondrial genes, and both positive and negative regulators of apoptosis. Metaanalysis identified which detachment-regulated categories overlap with those induced by suprabasal location in vivo, by reaching confluency in vitro, and by inhibition of JUN kinases. Attached and in vivo basal cells shared overexpression of mitochondrial components. Interestingly, melanosome trafficking components were also overexpressed in the attached and in vivo basal keratinocytes. Reaching confluency did not affect adhesion and ECM proteins. Lipid metabolism and steroid metabolism were induced by confluency and by JNK inhibition, respectively. These results suggest that specific pro-differentiation signals induce specific features of the keratinization process, which are in vivo orchestrated into harmonious epidermal homeostasis. Human epidermal keratinocytes are grown in standard growth medium either attached in tissue culture plates, or suspended, in the same medium, in bacteriological plates. After 48 hrs, attached and suspended cultures were harvested and their transcriptomes compared.

Dataset Information

Transcriptomic analysis of human retinal detachment (RD) reveals both inflammation and photoreceptor death

Publications

Transcriptomic analysis of human retinal detachment reveals both inflammatory response and photoreceptor death.

Similar Datasets

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