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Use of ENCODE Resources to Characterize Novel Proteoforms and Missing Proteins in the Human Proteome

Nilsson, C. L. (author)
Mostovenko, E. (author)
Lichti, C. F. (author)
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Ruggles, K. (author)
Fenyo, D. (author)
Rosenbloom, K. R. (author)
Hancock, W. S. (author)
Paik, Y. K. (author)
Omenn, G. S. (author)
LaBaer, J. (author)
Kroes, R. A. (author)
Uhlén, Matthias (author)
KTH,Proteomik och nanobioteknologi
Hober, Sophia (author)
KTH,Proteinteknologi
Végvári, Ákos (author)
Lund University,Lunds universitet,Avdelningen för Biomedicinsk teknik,Institutionen för biomedicinsk teknik,Institutioner vid LTH,Lunds Tekniska Högskola,Department of Biomedical Engineering,Departments at LTH,Faculty of Engineering, LTH
Andrén, Per E. (author)
Uppsala universitet,Institutionen för farmaceutisk biovetenskap
Sulman, E. P. (author)
Lang, F. F. (author)
Fuentes, M. (author)
Carlsohn, Elisabet (author)
Gothenburg University,Göteborgs universitet,Core Facilities, Proteomics,Core Facilities, Proteomics
Emmett, M. R. (author)
Moskal, J. R. (author)
Berven, F. S. (author)
Fehniger, Thomas (author)
Lund University,Lunds universitet,Avdelningen för Biomedicinsk teknik,Institutionen för biomedicinsk teknik,Institutioner vid LTH,Lunds Tekniska Högskola,Department of Biomedical Engineering,Departments at LTH,Faculty of Engineering, LTH
Marko-Varga, György (author)
Lund University,Lunds universitet,Avdelningen för Biomedicinsk teknik,Institutionen för biomedicinsk teknik,Institutioner vid LTH,Lunds Tekniska Högskola,Department of Biomedical Engineering,Departments at LTH,Faculty of Engineering, LTH
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 (creator_code:org_t)
2014-11-26
2015
English.
In: Journal of Proteome Research. - : American Chemical Society (ACS). - 1535-3893 .- 1535-3907. ; 14:2, s. 603-608
  • Journal article (peer-reviewed)
Abstract Subject headings
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  • 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.

Subject headings

MEDICIN OCH HÄLSOVETENSKAP  -- Medicinska och farmaceutiska grundvetenskaper -- Cell- och molekylärbiologi (hsv//swe)
MEDICAL AND HEALTH SCIENCES  -- Basic Medicine -- Cell and Molecular Biology (hsv//eng)
TEKNIK OCH TEKNOLOGIER  -- Medicinteknik (hsv//swe)
ENGINEERING AND TECHNOLOGY  -- Medical Engineering (hsv//eng)
NATURVETENSKAP  -- Biologi -- Biokemi och molekylärbiologi (hsv//swe)
NATURAL SCIENCES  -- Biological Sciences -- Biochemistry and Molecular Biology (hsv//eng)
MEDICIN OCH HÄLSOVETENSKAP  -- Medicinska och farmaceutiska grundvetenskaper -- Farmaceutiska vetenskaper (hsv//swe)
MEDICAL AND HEALTH SCIENCES  -- Basic Medicine -- Pharmaceutical Sciences (hsv//eng)

Keyword

Chromosome-centric Human Protein Project
ENCODE
glioma stem cell
protein sequence mass
PROJECT
GENOME
DRAFT
Biochemical Research Methods
Glioma stem cell
Protein sequence mass spectrometry
Microassays
Missing proteins
Chromosome-centric Human Protein Project

Publication and Content Type

ref (subject category)
art (subject category)

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