Human Eye Transcriptome Atlas

Human Eye Transcriptome Atlas provides a standardized transcriptomic resource for exploration and comparison of gene expression across healthy and diseased human eye tissues using deep sequencing data from 100 samples spanning 15 tissue types.

Key Features:

• Comprehensive Data Set: Contains gene expression profiles from 100 human eye tissue samples covering 15 tissue types, including both healthy and diseased states.
• Normalization and Comparability: Sequencing reads have been normalized across all samples to enable accurate cross-sample comparisons.
• Tissue-Specific Insights: Unsupervised analysis clusters samples by tissue origin and assesses tissue specificity using known marker genes.
• Cell Type Deconvolution: Applies bioinformatic cell type deconvolution with xCell to estimate cellular composition of each tissue.
• Identification of Marker Genes: Identifies tissue-specific marker genes, including markers linked to myelination in the optic nerve, visual perception in the retina, keratinocyte differentiation in conjunctival carcinoma, and endothelial cell migration in choroidal neovascularization membranes.

Scientific Applications:

• Research on Ocular Diseases: Supports investigation of tissue- and disease-specific gene expression to identify potential diagnostic markers and therapeutic targets for ocular conditions.
• Gene Expression Studies: Enables analysis of gene expression patterns across diverse eye tissues to study molecular mechanisms of normal and pathological states.
• Comparative Analysis: Facilitates direct comparison between healthy and diseased samples to detect disease-associated genetic changes.

Methodology:

Methods explicitly include use of deep sequencing technologies, normalization of sequencing reads across all samples, unsupervised clustering analyses to group samples by tissue origin, bioinformatic cell type deconvolution using xCell, and identification of tissue-specific marker genes.