A Comparative Study of Peptide Sequencing Software Tools for MS/MS
نویسندگان
چکیده
Overview MS/MS spectra of known and unknown peptides were used to study the performance of several de novo sequencing and database search programs. Proteins of the unknown peptides are not in databases, thereby necessitating de novo sequencing for identification. Three de novo sequencing programs, PEAKS, BioAnalyst, and Lutefisk were compared in this study. PEAKS provided the most reliable and accurate results for highquality ESI QqTOF data.
منابع مشابه
Multi-spectra peptide sequencing and its applications to multistage mass spectrometry
Despite a recent surge of interest in database-independent peptide identifications, accurate de novo peptide sequencing remains an elusive goal. While the recently introduced spectral network approach resulted in accurate peptide sequencing in low-complexity samples, its success depends on the chance of presence of spectra from overlapping peptides. On the other hand, while multistage mass spec...
متن کاملPEAKS: Powerful Software for Peptide De Novo Sequencing by MS/MS
A number of different approaches have been described to identify proteins from tandem mass spectrometry (MS/MS) data. The most common approaches rely on the available databases to match experimental MS/MS data. These methods suffer from several drawbacks and cannot be used for the identification of proteins from unknown genomes. In this communication, we describe a new de novo sequencing softwa...
متن کاملDe novo sequencing of peptides by MS/MS.
The current status of de novo sequencing of peptides by MS/MS is reviewed with focus on collision cell MS/MS spectra. The relation between peptide structure and observed fragment ion series is discussed and the exhaustive extraction of sequence information from CID spectra of protonated peptide ions is described. The partial redundancy of the extracted sequence information and a high mass accur...
متن کاملSoftware for computational peptide identification from MS-MS data.
Protein identification in biological samples is an important task in drug discovery research. Protein identification is nowadays regularly performed by tandem mass spectrometry (MS-MS). Because of the difficulty of measuring intact proteins using MS-MS, typically a protein is enzymically digested into peptides and the MS-MS spectrum of each peptide is measured. Computational methods are then in...
متن کاملAdepts: Advanced peptide de novo Sequencing with a Pair of Tandem Mass Spectra
De novo sequencing is an important task in proteomics to identify novel peptide sequences. Traditionally, only one MS/MS spectrum is used for the sequencing of a peptide; however, the use of multiple spectra of the same peptide with different types of fragmentation has the potential to significantly increase the accuracy and practicality of de novo sequencing. Research into the use of multiple ...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
عنوان ژورنال:
دوره شماره
صفحات -
تاریخ انتشار 2003