NEIBank: Est Analysis And Bioinformatics For Ocular Genomics

Wistow, Graeme J.

Abstract

Many human eye (and also ear) tissues and those of important animal models have now been analyzed. In addition NEIBank collaborations have added data on other sensory tissues, ear and taste bud. Recent eye additions include human optic nerve, human pterygium, rhesus monkey and cow lens and zebrafish cornea,. This DNA resource has been used to create cDNA microarrays with 13,000 non-redundant human eye expressed sequences and 6500 sequences from mouse eye. These are being used in analysis of human cellular responses and genetically modified mouse models. Data from NEIBank rabbit eye libraries have been used to create the first DNA microarray for rabbit eye research in collaboration with groups from the University of Florida. ? A powerful addition to the informatics tools for eye research is EyeBrowse, a dedicated genome browser for eye-expressed genes, produced in collaboration with CIT. http://eyebrowse.cit.nih.gov/genome/; a database for known human eye disease genes and a new tool to compare expression patterns of different tissues and species. In addition, NEIBank now incorporates data from the EyeSAGE project (Duke U) with a custom genome browser track for human eye-derived SAGE data. Another addition is a database of human eye disease genes which is currently undergoing update and annotation.

Funding Agency

• Agency: National Institute of Health (NIH)
• Institute: National Eye Institute (NEI)
• Type: Intramural Research (Z01)
• Project #: 1Z01EY000320-09
• Application #: 7594063
• Support Year: 9
• Fiscal Year: 2007
• Total Cost: $1,150,960

Institution

• Name: U.S. National Eye Institute
• Country: United States

Publications

Wistow, Graeme; Peterson, Katherine; Gao, James et al. (2008) NEIBank: genomics and bioinformatics resources for vision research. Mol Vis 14:1327-37

Harding, Rachel L; Howley, Sinead; Baker, Lee J et al. (2008) Lengsin expression and function during zebrafish lens formation. Exp Eye Res 86:807-18

Purkiss, Andrew G; Bateman, Orval A; Wyatt, Keith et al. (2007) Biophysical properties of gammaC-crystallin in human and mouse eye lens: the role of molecular dipoles. J Mol Biol 372:205-22

Popp, Michael P; Liu, Li; Timmers, Adrian et al. (2007) Development of a microarray chip for gene expression in rabbit ocular research. Mol Vis 13:164-73

Wyatt, Keith; White, Helen E; Wang, Luchun et al. (2006) Lengsin is a survivor of an ancient family of class I glutamine synthetases re-engineered by evolution for a role in the vertebrate lens. Structure 14:1823-34

Bowes Rickman, Catherine; Ebright, Jessica N; Zavodni, Zachary J et al. (2006) Defining the human macula transcriptome and candidate retinal disease genes using EyeSAGE. Invest Ophthalmol Vis Sci 47:2305-16

Wistow, Graeme (2006) The NEIBank project for ocular genomics: data-mining gene expression in human and rodent eye tissues. Prog Retin Eye Res 25:43-77

Vihtelic, Thomas S; Fadool, James M; Gao, James et al. (2005) Expressed sequence tag analysis of zebrafish eye tissues for NEIBank. Mol Vis 11:1083-100

Rabinowitz, Yaron S; Dong, Lijin; Wistow, Graeme (2005) Gene expression profile studies of human keratoconus cornea for NEIBank: a novel cornea-expressed gene and the absence of transcripts for aquaporin 5. Invest Ophthalmol Vis Sci 46:1239-46

Ozyildirim, Aylin M; Wistow, Graeme J; Gao, James et al. (2005) The lacrimal gland transcriptome is an unusually rich source of rare and poorly characterized gene transcripts. Invest Ophthalmol Vis Sci 46:1572-80