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Attempting to distinguish between endogenous and contaminating cytokeratins in a corneal proteomic study

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Author(s): Lyngholm Mikkel | Vorum Henrik | Nielsen Kim | Ehlers Niels | Honoré Bent

Journal: BMC Ophthalmology
ISSN 1471-2415

Volume: 11;
Issue: 1;
Start page: 3;
Date: 2011;
Original page

ABSTRACT
Abstract Background The observation of cytokeratins (CK's) in mass spectrometry based studies raises the question of whether the identified CK is a true endogenous protein from the sample or simply represents a contaminant. This issue is especially important in proteomic studies of the corneal epithelium where several CK's have previously been reported to mark the stages of differentiation from corneal epithelial stem cell to the differentiated cell. Methods Here we describe a method to distinguish very likely endogenous from uncertain endogenous CK's in a mass spectrometry based proteomic study. In this study the CK identifications from 102 human corneal samples were compared with the number of human CK identifications found in 102 murine thymic lymphoma samples. Results It was anticipated that the CK's that were identified with a frequency of
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