| COMPARISON OF TWO ACADEMIC SOFTWARE PACKAGES FOR ANALYZING TWO-DIMENSIONAL GEL IMAGES. | |
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MedLine Citation:
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PMID: 22084013 Owner: NLM Status: Publisher |
Abstract/OtherAbstract:
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One of the key limitations for proteomic studies using two-dimensional (2D) gel is the lack of automatic, fast, robust, and reliable methods for detecting, matching, and quantifying protein spots. Although there are commercial software packages for 2D gel image analysis, extensive human intervention is still needed for spot detection and matching, which is time-consuming and error-prone. Moreover, the commercial software packages are usually expensive and non-open source. Thus, it is very beneficial for researchers to have free software that is fast, fully automatic, and robust. In this paper, we review and compare two recently developed and publicly available software packages, RegStatGel and Pinnacle, for analyzing 2D gel images. These two software packages share some common features and also have some fundamental difference in the aspects of spot detection and quantification. Based on our experience, RegStatGel is much better in terms of spot detection and matching. It also contains more advanced statistical tools and is more user-friendly. In contrast, Pinnacle is quite sensitive to background noise and relies on external statistical software packages for statistical analysis. |
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Authors:
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Yukun Wu; LE Zhang |
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Publication Detail:
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Type: JOURNAL ARTICLE |
Journal Detail:
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Title: Journal of bioinformatics and computational biology Volume: 9 ISSN: 0219-7200 ISO Abbreviation: - Publication Date: 2011 Dec |
Date Detail:
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Created Date: 2011-11-15 Completed Date: - Revised Date: - |
Medline Journal Info:
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Nlm Unique ID: 101187344 Medline TA: J Bioinform Comput Biol Country: - |
Other Details:
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Languages: ENG Pagination: 775-794 Citation Subset: - |
Affiliation:
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Center for Vaccine Development, University of Maryland School of Medicine, Baltimore, MD 21201, USA. wu@medicine.umaryland.edu. |
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From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
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