Enabling proteomics discovery through visual analysis. The peptide permutation and protein prediction tool

Proteins play a key role in cellular processes, making proteomics central to understanding systems biology. MS techniques provide a means to observe entire proteomes at a global level. Yet, high-throughput MS proteomics techniques generate data faster than it can currently be analyzed. The success o...

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Veröffentlicht in:IEEE engineering in medicine and biology magazine 2005-05, Vol.24 (3), p.50-57
Hauptverfasser: Havre, Susan L, Singhal, Mudita, Payne, Deborah A, Lipton, Mary S Weir, Webb-Robertson, Bobbie-Jo M
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container_title IEEE engineering in medicine and biology magazine
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creator Havre, Susan L
Singhal, Mudita
Payne, Deborah A
Lipton, Mary S Weir
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description Proteins play a key role in cellular processes, making proteomics central to understanding systems biology. MS techniques provide a means to observe entire proteomes at a global level. Yet, high-throughput MS proteomics techniques generate data faster than it can currently be analyzed. The success of proteomics depends on high-throughput experimental techniques coupled with sophisticated visual analysis and data-mining methods. Visual analysis has been applied successfully in a number of fields plagued with huge, complex data sets and will likely be an important tool in proteomics discovery. PQuad, a novel visualization of MS proteomics data, provides powerful analysis capabilities that support a number of proteomic data applications. In particular, PQuad supports differential proteomics by simplifying the comparison of peptide sets from different experimental conditions as well as different protein identification or confidence scoring techniques. Finally, PQuad supports data validation and quality control by providing a variety of resolutions for huge amounts of data to reveal errors undetected by other methods.
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subjects Algorithms
Computer Graphics
Gene Expression Profiling - methods
Mass Spectrometry - methods
Peptides - analysis
Peptides - chemistry
Peptides - genetics
Peptides - metabolism
Proteins - analysis
Proteins - chemistry
Proteins - genetics
Proteins - metabolism
Proteomics - methods
Sequence Analysis, Protein - methods
Software
Systems Biology - methods
User-Computer Interface
title Enabling proteomics discovery through visual analysis. The peptide permutation and protein prediction tool
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