ArticleJournal of the American Society for Mass Spectrometry2010
Relative, label-free protein quantitation: spectral counting error statistics from nine replicate MudPIT samples.
Article in Journal of the American Society for Mass Spectrometry, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
18 citing papers in PubMed, 48 citations in OpenAlex.
- MdBVe46 is an envelope protein that is required for virion formation by Microplitis demolitor bracovirus.The Journal of general virology · 2021Article
- Blistering1 ModulatesMolecular & cellular proteomics : MCP · 2020Article
- Robust determination of differential abundance in shotgun proteomics using nonparametric statistics.Molecular omics · 2018Article
- Multi-hierarchical profiling the structure-activity relationships of engineered nanomaterials at nano-bio interfaces.Nature communications · 2018Article
- A multi-model statistical approach for proteomic spectral count quantitation.Journal of proteomics · 2016Article
- Different Cellular Origins and Functions of Extracellular Proteins from Escherichia coli O157:H7 and O104:H4 as Determined by Comparative Proteomic Analysis.Applied and environmental microbiology · 2016Article
- Protein Phosphorylation and Redox Modification in Stomatal Guard Cells.Frontiers in physiology · 2016Review
- Differentially charged isoforms of apolipoprotein E from human blood are potential biomarkers of Alzheimer's disease.Alzheimer's research & therapy · 2014Article
- Phosphothreonine 218 is required for the function of SR45.1 in regulating flower petal development in Arabidopsis.Plant signaling & behavior · 2014Article
- Chemoproteomic analysis of intertissue and interspecies isoform diversity of AMP-activated protein kinase (AMPK).The Journal of biological chemistry · 2013Article
- Separation anxiety: an analysis of ethylene-induced cleavage of EIN2.Plant signaling & behavior · 2013Article
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- Precision, proteome coverage, and dynamic range of Arabidopsis proteome profiling using (15)N metabolic labeling and label-free approaches.Molecular & cellular proteomics : MCP · 2012Article
- Gel-based and gel-free quantitative proteomics approaches at a glance.International journal of plant genomics · 2012Article
- Evaluation of normalization methods on GeLC-MS/MS label-free spectral counting data to correct for variation during proteomic workflows.Journal of the American Society for Mass Spectrometry · 2011Article
- The proteome of mouse brain microvessel membranes and basal lamina.Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism · 2011Article
- A bayesian mixture model for comparative spectral count data in shotgun proteomics.Molecular & cellular proteomics : MCP · 2011Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Nine replicate samples of peptides from soybean leaves, each spiked with a different concentration of bovine apotransferrin peptides, were analyzed on a mass spectrometer using multidimensional protein identification technology (MudPIT). Proteins were detected from the peptide tandem mass spectra, and the numbers of spectra were statistically evaluated for variation between samples. The results corroborate prior knowledge that combining spectra from replicate samples increases the number of identifiable proteins and that a summed spectral count for a protein increases linearly with increasing molar amounts of protein. Furthermore, statistical analysis of spectral counts for proteins in two- and three-way comparisons between replicates and combined replicates revealed little significant variation arising from run-to-run differences or data-dependent instrument ion sampling that might falsely suggest differential protein accumulation. In these experiments, spectral counting was enabled by PANORAMICS, probability-based software that predicts proteins detected by sets of observed peptides. Three alternative approaches to counting spectra were also evaluated by comparison. As the counting thresholds were changed from weaker to more stringent, the accuracy of ratio determination also changed. These results suggest that thresholds for counting can be empirically set to improve relative quantitation. All together, the data confirm the accuracy and reliability of label-free spectral counting in the relative, quantitative analysis of proteins between samples.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.