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It correlates collections of tandem mass spectra to peptide sequences that have been generated from databases of protein sequences. [21] SIMS Open source: SIMS was designed to perform unrestricted PTM searches over tandem mass spectra. [22] SimTandem Freeware: SimTandem is a database search engine for identification of peptide sequences from LC ...
In the standard system the conversion is that 1 gallon = 231 cubic inches and 1 inch = 2.54 cm, which makes a gallon = 3785.411784 millilitres exactly. For nutritional labeling on food packages in the US, the teaspoon is defined as exactly 5 ml, [ 22 ] giving 1 gallon = 3840 ml exactly.
Intuitively, the trust associated with a protein measurement depends on the similarity of ratios from different peptides and the signal level of these measurements. A mathematically rigorous approach called BACIQ, that integrates peptide intensities and peptide-measurement agreement into confidence intervals for protein ratios has emerged. [8]
The Dumas method has the advantages of being easy to use and fully automatable. It has been developed into a considerably faster method than the Kjeldahl method, and can take a few minutes per measurement, as compared to the hour or more for Kjeldahl. It also does not make use of toxic chemicals or catalysts.
Label-free quantification may be based on precursor signal intensity and has problems due to isolation interference: in high-throughput studies, the identity of the peptide precursor ion being measured could easily be a completely different peptide with a similar m/z ratio and which elutes in a time frame overlapping with that of the former ...
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The possible peptide that has the most similar spectrum will have the highest chance to be the right sequence. However, the number of possible peptides may be large. For example, a precursor peptide with a molecular weight of 774 has 21,909,046 possible peptides. Even though it is done in the computer, it takes a long time. [17] [18]
In the field of engineering, the hydrophobicity (or dewetting ability) of a flat surface (e.g., a counter top in kitchen or a cooking pan) can be measured by the contact angle of water droplet. A University of Nebraska-Lincoln team recently devised a computational approach that can relate the molecular hydrophobicity scale of amino-acid chains ...