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Functional Annotation of 2D Protein Maps: The GelMap Portal
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 prot...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Frontiers Research Foundation
2012
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3355635/ https://www.ncbi.nlm.nih.gov/pubmed/22639671 http://dx.doi.org/10.3389/fpls.2012.00087 |
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author | Senkler, Michael Braun, Hans-Peter |
author_facet | Senkler, Michael Braun, Hans-Peter |
author_sort | Senkler, Michael |
collection | PubMed |
description | 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/. |
format | Online Article Text |
id | pubmed-3355635 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2012 |
publisher | Frontiers Research Foundation |
record_format | MEDLINE/PubMed |
spelling | pubmed-33556352012-05-25 Functional Annotation of 2D Protein Maps: The GelMap Portal Senkler, Michael Braun, Hans-Peter Front Plant Sci Plant Science 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/. Frontiers Research Foundation 2012-05-14 /pmc/articles/PMC3355635/ /pubmed/22639671 http://dx.doi.org/10.3389/fpls.2012.00087 Text en Copyright © 2012 Senkler and Braun. http://www.frontiersin.org/licenseagreement This is an open-access article distributed under the terms of the Creative Commons Attribution Non Commercial License, which permits non-commercial use, distribution, and reproduction in other forums, provided the original authors and source are credited. |
spellingShingle | Plant Science Senkler, Michael Braun, Hans-Peter Functional Annotation of 2D Protein Maps: The GelMap Portal |
title | Functional Annotation of 2D Protein Maps: The GelMap Portal |
title_full | Functional Annotation of 2D Protein Maps: The GelMap Portal |
title_fullStr | Functional Annotation of 2D Protein Maps: The GelMap Portal |
title_full_unstemmed | Functional Annotation of 2D Protein Maps: The GelMap Portal |
title_short | Functional Annotation of 2D Protein Maps: The GelMap Portal |
title_sort | functional annotation of 2d protein maps: the gelmap portal |
topic | Plant Science |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3355635/ https://www.ncbi.nlm.nih.gov/pubmed/22639671 http://dx.doi.org/10.3389/fpls.2012.00087 |
work_keys_str_mv | AT senklermichael functionalannotationof2dproteinmapsthegelmapportal AT braunhanspeter functionalannotationof2dproteinmapsthegelmapportal |