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Use of ENCODE Resources to Characterize Novel Proteoforms and Missing Proteins in the Human Proteome
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2015 (English)In: Journal of Proteome Research, ISSN 1535-3893, E-ISSN 1535-3907, Vol. 14, no 2, 603-608 p.Article in journal (Refereed) Published
Abstract [en]

We describe the utility of integrated strategies that employ both translation of ENCODE data and major proteomic technology pillars to improve the identification of the "missing proteins", novel proteoforms, and PTMs. On one hand, databases in combination with bioinformatic tools are efficiently utilized to establish microarray-based transcript analysis and supply rapid protein identifications in clinical samples. On the other hand, sequence libraries are the foundation of targeted protein identification and quantification using mass spectrometric and immunoaffinity techniques. The results from combining proteoENCODEdb searches with experimental mass spectral data indicate that some alternative splicing forms detected at the transcript level are in fact translated to proteins. Our results provide a step toward the directives of the C-HPP initiative and related biomedical research.

Place, publisher, year, edition, pages
2015. Vol. 14, no 2, 603-608 p.
Keyword [en]
Chromosome-centric Human Protein Project, ENCODE, glioma stem cell, protein sequence mass spectrometry, microassays, missing proteins
National Category
Pharmaceutical Sciences Cell and Molecular Biology
URN: urn:nbn:se:uu:diva-248201DOI: 10.1021/pr500564qISI: 000349276400002PubMedID: 25369122OAI: oai:DiVA.org:uu-248201DiVA: diva2:799519
Available from: 2015-03-31 Created: 2015-03-30 Last updated: 2015-03-31Bibliographically approved

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Andrén, Per E.
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