eyeIntegration Dataset

Probe the relatedness and biological processes between the cornea, retina, RPE (choroid), and the rest of the human tissues by using a fully integrated dataset with differential expression, clustering, and GO term enrichment tools.

Data Type(s)

Access Type

Keyword(s)

GO Term Enrichment Tool,
GTEx Project,
PCA Tool,
Transcript Expression,
RNA-seq Datasets,
Bioinformatic Analysis

Contact Information

Please reach out to Johnny Tam at johnny@nih.gov if you have questions about these resources.

Publication(s) Referencing This Resource

https://doi.org/10.1093/hmg/ddy239

Identifier(s)

DOI: https://doi.org/10.1093/hmg/ddy239

Details

We have collated publicly available (deposited between January 1st, 2019 and November 1st, 2023) healthy human RNA-seq datasets and a substantial subset of the GTEx project RNA-seq datasets and processed all of these samples in a consistent bioinformatic workflow. We use this fully integrated dataset to build informative visualizations, a novel PCA tool, and UCSC genome browser to provide the ophthalmic community with a powerful and quick means to formulate and test hypotheses on human gene and transcript expression.

Access and License Information

License

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Citation(s)

John M Bryan, Temesgen D Fufa, Kapil Bharti, Brian P Brooks, Robert B Hufnagel, David M McGaughey, Identifying core biological processes distinguishing human eye tissues with precise systems-level gene expression analyses and weighted correlation networks, Human Molecular Genetics, Volume 27, Issue 19, 1 October 2018, Pages 3325–3339, https://doi.org/10.1093/hmg/ddy239

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