Chapter title |
Modification Site Localization in Peptides
|
---|---|
Chapter number | 13 |
Book title |
Modern Proteomics – Sample Preparation, Analysis and Practical Applications
|
Published in |
Advances in experimental medicine and biology, December 2016
|
DOI | 10.1007/978-3-319-41448-5_13 |
Pubmed ID | |
Book ISBNs |
978-3-31-941446-1, 978-3-31-941448-5
|
Authors |
Robert J. Chalkley |
Editors |
Hamid Mirzaei, Martin Carrasco |
Abstract |
There are a large number of search engines designed to take mass spectrometry fragmentation spectra and match them to peptides from proteins in a database. These peptides could be unmodified, but they could also bear modifications that were added biologically or during sample preparation. As a measure of reliability for the peptide identification, software normally calculates how likely a given quality of match could have been achieved at random, most commonly through the use of target-decoy database searching (Elias and Gygi, Nat Methods 4(3): 207-214, 2007). Matching the correct peptide but with the wrong modification localization is not a random match, so results with this error will normally still be assessed as reliable identifications by the search engine. Hence, an extra step is required to determine site localization reliability, and the software approaches to measure this are the subject of this part of the chapter. |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
Unknown | 8 | 100% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Other | 2 | 25% |
Student > Bachelor | 1 | 13% |
Professor | 1 | 13% |
Student > Ph. D. Student | 1 | 13% |
Student > Master | 1 | 13% |
Other | 0 | 0% |
Unknown | 2 | 25% |
Readers by discipline | Count | As % |
---|---|---|
Pharmacology, Toxicology and Pharmaceutical Science | 2 | 25% |
Biochemistry, Genetics and Molecular Biology | 2 | 25% |
Computer Science | 1 | 13% |
Medicine and Dentistry | 1 | 13% |
Engineering | 1 | 13% |
Other | 0 | 0% |
Unknown | 1 | 13% |