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HiRIEF LC-MSMS enables deep proteome coverage and unbiased proteogenomics
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2014 (English)In: Nature Methods, ISSN 1548-7091, E-ISSN 1548-7105, Vol. 11, no 1, 59- p.Article in journal (Refereed) Published
Abstract [en]

We present a liquid chromatography-mass spectrometry (LC-MSMS)-based method permitting unbiased (gene prediction-independent) genome-wide discovery of protein-coding loci in higher eukaryotes. Using high-resolution isoelectric focusing (HiRIEF) at the peptide level in the 3.7-5.0 pH range and accurate peptide isoelectric point (pI) prediction, we probed the six-reading-frame translation of the human and mouse genomes and identified 98 and 52 previously undiscovered protein-coding loci, respectively. The method also enabled deep proteome coverage, identifying 13,078 human and 10,637 mouse proteins.

Place, publisher, year, edition, pages
2014. Vol. 11, no 1, 59- p.
Keyword [en]
Tandem Mass-Spectra, Peptide Identification, Human Genome, Gene, Fractionation, Spectrometry, Pseudogenes, Annotation, Landscape, Dynamics
National Category
Biochemistry and Molecular Biology
Identifiers
URN: urn:nbn:se:kth:diva-140375DOI: 10.1038/NMETH.2732ISI: 000329178200027Scopus ID: 2-s2.0-84894619287OAI: oai:DiVA.org:kth-140375DiVA: diva2:690403
Funder
Swedish Research CouncilSwedish Cancer SocietyEU, FP7, Seventh Framework Programme, GlycoHitScience for Life Laboratory - a national resource center for high-throughput molecular bioscienceSwedish e‐Science Research Center
Note

QC 20140123

Available from: 2014-01-23 Created: 2014-01-23 Last updated: 2017-12-06Bibliographically approved

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Käll, Lukas

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