Protein Metrics provides comprehensive, vendor-neutral mass spectrometry data analysis software for protein characterization, quantification and identification
20k Accesses 71 Citations 94 Altmetric Metrics details Abstract The polyglutamine expansion of huntingtin (mHTT) causes Huntington disease (HD) and neurodegeneration, but the mechanisms remain unclear. Here, we found that mHtt promotes ribosome stalling and suppresses protein synthesis in mouse HD ...
Metrics Abstract Protein–DNA interactions are key to the functionality and stability of the genome. Identification and mapping of protein–DNA interaction interfaces and sites is crucial for understanding DNA-dependent processes. Here, we present a workflow that allows mass spectrometric (MS) identificat...
In addition, this resource permits new dose metrics based directly on mass spectrometric data that can be used for experiment design. In this study, we report the application of intact mass spectrometry approaches to rapidly assess the outcome of X-ray footprinting experiments at the XFP beamline ...
Additional metrics were developed to analyze the “intactness” and “purity” of known protein complexes as a function of increasing cluster number (42). Intactness measured the extent to which a complex remained assembled at increasing cluster number by calculating the ratio of the number of subun...
When feeding on a vertebrate host, ticks secrete saliva, which is a complex mixture of proteins, lipids, and other molecules. Tick saliva assists the vector in modulating host hemostasis, immunity, and tissue repair mechanisms. While helping the vector t
mutations allow the virus to retain its pathogenicity in both in vivo and in vitro systems. This would prove valuable for the design of a live, attenuated vaccine with a PBM sufficiently mutated to remain intact, but also enough to be non-functional and abolish the pathogenicity of the ...
Results We have developed novel metrics, called semantic similarity and semantic interactivity, which use Gene Ontology (GO) annotations to measure the reliability of protein-protein interactions. The protein interaction networks can be converted into a weighted graph representation by assigning the reliabi...
We quantitatively assessed the quality of our predicted models using several of the following metrics. The global RMSDs (root-mean-square deviations) of the predicted models to their native structures were calculated. Predictions with IM data where RMSD was within 0.5 Å of the RMSD of the...
MS2 fragments were detected in the Orbitrap with a mass resolution of 30,000, with injection time set to auto. The resulting raw data files were searched using Byonic software 4.0.12 (Protein Metrics) against the reference chicken (Gallus gallus) proteome (2021; 2,296 entries) and the 309-...