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10.1021/acs.jproteome.0c00602 http://scihub22266oqcxt.onion/10.1021/acs.jproteome.0c00602 33325715!8592057!33325715     free     free     free Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534       J+Proteome+Res 2021 ; 20 (4): 1972-1980 Nephropedia Template TP {{tp|p=33325715|t=2021. Peptide Correlation Analysis (PeCorA) Reveals Differential Proteoform Regulation |pdf=|usr=}}{{33325715}} gab.com Text Peptide Correlation Analysis (PeCorA) Reveals Differential Proteoform Regulation JO: J Proteome Res http://www.kidney.de/pget.php?&tw=1&pmid=33325715 #FOAvip Shotgun proteomics techniques infer the presence and quantity of proteins using peptide proxies produced by cleavage of the proteome with a protease. Most protein quantitation strategies assume that multiple peptides derived from a protein will behave quantitatively similar across treatment groups, but this assumption may be false due to (1) heterogeneous proteoforms and (2) technical artifacts. Here we describe a strategy called peptide correlation analysis (PeCorA) that detects quantitative disagreements between peptides mapped to the same protein. PeCorA fits linear models to assess whether a peptide's change across treatment groups differs from all other peptides assigned to the same protein. PeCorA revealed that approximately 15% of proteins in a mouse microglia stress data set contain at least one discordant peptide. Inspection of the discordant peptides shows the utility of PeCorA for the direct and indirect detection of regulated post-translational modifications (PTMs) and also for the discovery of poorly quantified peptides. The exclusion of poorly quantified peptides before protein quantity summarization decreased false-positives in a benchmark data set. Finally, PeCorA suggests that the inactive isoform of prothrombin, a coagulation cascade protease, is more abundant in plasma from COVID-19 patients relative to non-COVID-19 controls. PeCorA is freely available as an R package that works with arbitrary tables of quantified peptides. Twit Text FOAVip Peptide Correlation Analysis (PeCorA) Reveals Differential Proteoform Regulation ????J Proteome Res http://www.kidney.de/pget.php?&tw=1&pmid=33325715 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=33325715 #FOAvip English Wikipedia <ref>{{Cite pmid|33325715}}</ref> Peptide Correlation Analysis (PeCorA) Reveals Differential Proteoform Regulation #MMPMID33325715 Dermit M; Peters-Clarke TM; Shishkova E; Meyer JG J Proteome Res 2021[Apr]; 20 (4): 1972-1980 PMID33325715show ga Shotgun proteomics techniques infer the presence and quantity of proteins using peptide proxies produced by cleavage of the proteome with a protease. Most protein quantitation strategies assume that multiple peptides derived from a protein will behave quantitatively similar across treatment groups, but this assumption may be false due to (1) heterogeneous proteoforms and (2) technical artifacts. Here we describe a strategy called peptide correlation analysis (PeCorA) that detects quantitative disagreements between peptides mapped to the same protein. PeCorA fits linear models to assess whether a peptide's change across treatment groups differs from all other peptides assigned to the same protein. PeCorA revealed that approximately 15% of proteins in a mouse microglia stress data set contain at least one discordant peptide. Inspection of the discordant peptides shows the utility of PeCorA for the direct and indirect detection of regulated post-translational modifications (PTMs) and also for the discovery of poorly quantified peptides. The exclusion of poorly quantified peptides before protein quantity summarization decreased false-positives in a benchmark data set. Finally, PeCorA suggests that the inactive isoform of prothrombin, a coagulation cascade protease, is more abundant in plasma from COVID-19 patients relative to non-COVID-19 controls. PeCorA is freely available as an R package that works with arbitrary tables of quantified peptides. |*Proteomics[MESH] |Animals[MESH] |COVID-19/blood[MESH] |Humans[MESH] |Mice[MESH] |Microglia[MESH] |Peptides/*analysis[MESH] |Protein Processing, Post-Translational[MESH] |Proteome[MESH]Peptide Correlation Analysis (PeCorA) Reveals Differential Proteoform (epmc).pdf DeepDyve Pubget Overpricing