Details
| Original language | English |
|---|---|
| Article number | 87 |
| Journal | Frontiers in Plant Science |
| Volume | 3 |
| Issue number | MAY |
| Publication status | Published - 14 May 2012 |
Abstract
In classical proteome analyses, final experimental data are (a) images of 2D protein separations obtained by gel electrophoresis and (b) corresponding lists of proteins which were identified by mass spectrometry (MS). For data annotation, software tools were developed which allow the linking of protein identity data directly to 2D gels ("clickable gels"). GelMap is a new online software tool to annotate 2D protein maps. It allows (i) functional annotation of all identified proteins according to biological categories defined by the user, e.g., subcellular localization, metabolic pathway, or assignment to a protein complex and (ii) annotation of several proteins per analyzed protein "spot" according to MS primary data. Options to differentially display proteins of functional categories offer new opportunities for data evaluation. For instance, if used for the annotation of 2D Blue native/SDS gels, GelMap allows the identification of protein complexes of low abundance. A web portal has been established for presentation and evaluation of protein identity data related to 2D gels and is freely accessible at http://www.gelmap.de/.
Keywords
- Data annotation, Data visualization, Mass spectrometry, Proteomics, Software, Two-dimensional gel electrophoresis, Web portal
ASJC Scopus subject areas
- Agricultural and Biological Sciences(all)
- Plant Science
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In: Frontiers in Plant Science, Vol. 3, No. MAY, 87, 14.05.2012.
Research output: Contribution to journal › Review article › Research › peer review
}
TY - JOUR
T1 - Functional annotation of 2D protein maps
T2 - The GelMap portal
AU - Senkler, Michael
AU - Braun, Hans Peter
PY - 2012/5/14
Y1 - 2012/5/14
N2 - In classical proteome analyses, final experimental data are (a) images of 2D protein separations obtained by gel electrophoresis and (b) corresponding lists of proteins which were identified by mass spectrometry (MS). For data annotation, software tools were developed which allow the linking of protein identity data directly to 2D gels ("clickable gels"). GelMap is a new online software tool to annotate 2D protein maps. It allows (i) functional annotation of all identified proteins according to biological categories defined by the user, e.g., subcellular localization, metabolic pathway, or assignment to a protein complex and (ii) annotation of several proteins per analyzed protein "spot" according to MS primary data. Options to differentially display proteins of functional categories offer new opportunities for data evaluation. For instance, if used for the annotation of 2D Blue native/SDS gels, GelMap allows the identification of protein complexes of low abundance. A web portal has been established for presentation and evaluation of protein identity data related to 2D gels and is freely accessible at http://www.gelmap.de/.
AB - In classical proteome analyses, final experimental data are (a) images of 2D protein separations obtained by gel electrophoresis and (b) corresponding lists of proteins which were identified by mass spectrometry (MS). For data annotation, software tools were developed which allow the linking of protein identity data directly to 2D gels ("clickable gels"). GelMap is a new online software tool to annotate 2D protein maps. It allows (i) functional annotation of all identified proteins according to biological categories defined by the user, e.g., subcellular localization, metabolic pathway, or assignment to a protein complex and (ii) annotation of several proteins per analyzed protein "spot" according to MS primary data. Options to differentially display proteins of functional categories offer new opportunities for data evaluation. For instance, if used for the annotation of 2D Blue native/SDS gels, GelMap allows the identification of protein complexes of low abundance. A web portal has been established for presentation and evaluation of protein identity data related to 2D gels and is freely accessible at http://www.gelmap.de/.
KW - Data annotation
KW - Data visualization
KW - Mass spectrometry
KW - Proteomics
KW - Software
KW - Two-dimensional gel electrophoresis
KW - Web portal
UR - http://www.scopus.com/inward/record.url?scp=84881308650&partnerID=8YFLogxK
U2 - 10.3389/fpls.2012.00087
DO - 10.3389/fpls.2012.00087
M3 - Review article
AN - SCOPUS:84881308650
VL - 3
JO - Frontiers in Plant Science
JF - Frontiers in Plant Science
SN - 1664-462X
IS - MAY
M1 - 87
ER -