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Human Eye Proteome Project (EyeOME)

The general aims of the EyeOME are: (i) to develop tools for the identification and quantification of proteins in the human eye, and to apply these tools to identify disease pathways that will lead to new therapeutic interventions and biomarkers for the prevention and treatment of blinding eye diseases; (ii) to build a network and community of scientists who will work together and facilitate common interests in the application of proteomics to eye diseases; (iii) to characterize the proteome of the normal human eye during the entire life cycle, including protein variants and PTMs; (iv) to establish standard operating procedures for study of the human eye proteome, such as the processing, dissection, and storage of eye bank eyes, collection of tears, aqueous humor, and vitreous, collection of ocular tissues during surgery, and storage of samples; (v) to establish standards for the reporting of proteomic data in order to develop a high-confidence human eye proteome database; (vi) to establish repositories of human samples to facilitate exchange and collaboration; (vii) to collect eye proteomedata and research protocols from members for open access; and (viii) to raise funds for exchange of postdoctoral fellows, symposia at HUPO, and collaborative symposia with the Association for Research in Vision and Ophthalmology (ARVO).A comprehensive proteomics analysis of the human iris tissue: ready to embrace postgenomics precision medicine in ophthalmology?

    Current lines of work:

    • Characterization of all subproteomes of the human eye
    • Development of selected reaction monitoring assays for proteoforms implicated in major eye diseases
    • Use of existing formalin-fixed, paraffin-embedded eye tissues for discovery proteomics

    Papers:

    The Human Eye Proteome Project: Updates on an Emerging Proteome. Proteomics. Ahmad MT, Zhang P, Dufresne C, Ferrucci L, Semba RD.  2018 Mar;18(5-6):e1700394.

    Combined Targeted Analysis of Metabolites and Proteins in Tear Fluid With Regard to Clinical Applications. Dammeier S, Martus P, Klose F, Seid M, Bosch D, D'Alvise J, Ziemssen F, Dimopoulos S, Ueffing M. Transl Vis Sci Technol. 2018 Dec 6;7(6):22.

    Quantitative proteomic analysis of aqueous humor from patients with drusen and reticular pseudodrusen in age-related macular degeneration. Baek JH, Lim D, Park KH, Chae JB, Jang H, Lee J, Chung H. BMC Ophthalmol. 2018 Nov 7;18(1):289.

    A Comprehensive Proteomics Analysis of the Human Iris Tissue: Ready to Embrace Postgenomics Precision Medicine in Ophthalmology? Murthy KR, Dammalli M, Pinto SM, Murthy KB, Nirujogi RS, Madugundu AK, Dey G, Subbannayya Y, Mishra UK, Nair B, Gowda H, Prasad TS. OMICS. 2016 Sep;20(9):510-9.

    The proteome of normal human retrobulbar optic nerve and sclera. Proteomics. Zhang P, Karani R, Turner RL, Dufresne C, Ferri S, Van Eyk JE, Semba RD. 2016 Aug 19. doi: 10.1002/pmic.201600229. [Epub ahead of print]

    Defining the proteome of human iris, ciliary body, retinal pigment epithelium, and choroid. Zhang P, Kirby D, Dufresne C, Chen Y, Turner R, Ferri S, Edward DP, Van Eyk JE, Semba RD. Proteomics. 2016 Apr;16(7):1146-53.

    Proteomic insight into the molecular function of the vitreous. Skeie JM, Roybal CN, Mahajan VB. PLoS One. 2015 May 28;10(5):e0127567.

    Priorities and trends in the study of proteins in eye research, 1924-2014.  Semba RD, Lam M, Sun K, Zhang P, Schaumberg DA, Ferrucci L, Ping P, Van Eyk JE. Proteomics Clin Appl. 2015 Dec;9(11-12):1105-22.

    The proteome of human retina. Proteomics. Zhang P, Dufresne C, Turner R, Ferri S, Venkatraman V, Karani R, Lutty GA, Van Eyk JE, Semba RD. 2015 Feb;15(4):836-40.

    Exosomal proteins in the aqueous humor as novel biomarkers in patients with neovascular age-related macular degeneration. Kang GY, Bang JY, Choi AJ, Yoon J, Lee WC, Choi S, Yoon S, Kim HC, Baek JH, Park HS, Lim HJ, Chung H. J Proteome Res. 2014 Feb 7;13(2):581-95.

    The Human Eye Proteome Project: perspectives on an emerging proteome. Semba RD, Enghild JJ, Venkatraman V, Dyrlund TF, Van Eyk JE. . Proteomics. 2013 Aug;13(16):2500-11.

    Leadership:

    Richard D. Semba, Chair

    Marius Ueffing, Co-chair

    Hyewon Chung, Co-chair

    For more information or participation opportunities please contact office(at)hupo.org.





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