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ProteomicsIdentifying sources of tick blood meals using unidentified tandem mass spectral libraries
Rapid and reliable identification of the vertebrate species on which a disease vector previously parasitized is imperative to study ecological factors that affect pathogen distribution and can aid the development of public health programs. We here describe a proteome profiling technique designed to ...
ORGANISM(S): Nanger dama mhorr Ixodes scapularis (Black-legged tick) (Deer tick) Anas platyrhynchos Mus musculus (Mouse) Chelodina longicollis (Snake-necked turtle) (Testudo longicollis) Panthera leo (Lion) Equus asinus africanus Eryx colubrinus loveridgei Colobus guereza (Mantled guereza) (Eastern black-and-white colobus monkey) Tremarctos ornatus (Spectacled bear) Sturnus vulgaris (Starling) Panthera tigris (Tiger) Capra hircus (Goat) Pteropus rodricensis (Rodriguez flying fox) Sciurus carolinensis (Gray squirrel) Macropus rufus (Red kangaroo) (Megaleia rufa) Alligator mississippiensis (American alligator) Corucia zebrata Tamias striatus (Eastern chipmunk) Rhynchocyon petersi (black and rufous elephant shrew) Ovis aries Peromyscus leucopus (White-footed mouse) Rousettus aegyptiacus (Egyptian rousette) (Egyptian fruit bat) Pituophis melanoleucus (Pine snake) (Coluber melanoleucus) Malaclemys terrapin (Diamondback terrapin) (Testudo terrapin) Strix varia (Barred owl) 
2014-04-03 | PXD000170 | Pride
Spectral libraries Ecological proteomics Unknown genome proteomics 
ProteomicsE. coli source tracking - A peptide identification-free, genome sequence-independent shotgun proteomics workflow for strain-level bacterial differentiation
We report a novel, peptide identification-free shotgun proteomics workflow as a bacterial fingerprinting method. This method uses a similarity-clustering algorithm to segregate the mass spectra that are presumably derived from individual peptide speciess and merge them into discrete units of consens...
ORGANISM(S): Escherichia coli 
2015-10-05 | PXD001646 | Pride
73 e. coli strains from different animal hosts(cow  pig  dog and human)  environmental samples  ltq 
ProteomicsComparative analysis of mRNA degradation and protein degradation in prostate tissues indicates high stability of proteins
To benchmark the PIN algorithm that quantifies the extent of protein degradation in samples, we generated a set of “ground truth” samples, in which the levels of proteome degradation were known and independently validated by western blotting. Protein extracts of HeLa Kyoto cells were treated with th...
ORGANISM(S): Homo sapiens (Human) 
2019-06-12 | PXD013622 | Pride
Benchmarking  proteome integrity 
ProteomicsComparative analysis of mRNA degradation and protein degradation in 68 pairs of adjacent prostate tissue samples indicates high stability of proteins
Here we investigated the degradation of mRNA and protein in 68 pairs of adjacent prostate tissue samples using RNA-seq and pressure cycling technology (PCT) coupled with SWATH mass spectrometry and developed a score, the Proteome Integrity Number (PIN), to quantify the extent of protein degradation ...
ORGANISM(S): Homo sapiens (Human) 
2019-06-12 | PXD007841 | Pride
Dia/swath  clinical tissues  protein stability 
ProteomicsA tissue-based draft map of the murine MHC class I immunopeptidome
The array of peptides presented to CD8+ T cells by major histocompatibility complex (MHC) class I molecules is referred to as the MHC class I immunopeptidome. Although the MHC class I immunopeptidome is ubiquitous in mammals and represents a critical component of the adaptive immune system, very lit...
ORGANISM(S): Mus Musculus (ncbitaxon:10090) 
2020-02-19 | MSV000084980 | MassIVE
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