ADEPTS: Advanced peptide de novo sequencing with a pair of tandem mass spectra
peer-reviewed · Journal of Bioinformatics and Computational Biology · 2010
peer-reviewed · Journal of Bioinformatics and Computational Biology · 2010. Lin He et al. De novo sequencing is an important task in proteomics to identify novel peptide sequences. Traditionally…
| Date | 2010-12-01 |
| Type | peer-reviewed |
| Venue | Journal of Bioinformatics and Computational Biology |
| Publisher | World Scientific Pub Co Pte Ltd |
| Contribution | algorithm |
| DOI | 10.1142/S0219720010005099 |
| Citations (OpenAlex) | 31 |
| Venue 2-year citedness | 0.88 |
Abstract
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 spectra is in a nascent stage. We propose a general framework to combine the two different types of MS/MS data. Experiments demonstrate that our method significantly improves the de novo sequencing of existing software.
Methods and tools
- ADEPTS: Advanced peptide de novo sequencing framework using a pair of tandem mass spectra.
Cites (5)
- De novo peptide sequencing by tandem MS using complementary CID and electron transfer dissociation (2009) crossref
- Proteomics-Grade de Novo Sequencing Approach (2005) crossref
- De Novo Peptide Sequencing Based on a Divide-and-Conquer Algorithm and Peptide Tandem Spectrum Simulation (2004) crossref
- Implementation and Uses of Automated de Novo Peptide Sequencing by Tandem Mass Spectrometry (2001) crossref
- De novo peptide sequencing via tandem mass spectrometry (1999) crossref
Cited by (8)
- Comprehensive de Novo Peptide Sequencing from MS/MS Pairs Generated through Complementary Collision Induced Dissociation and 351 nm Ultraviolet Photodissociation (2017) both
- Spectra library assisted de novo peptide sequencing for HCD and ETD spectra pairs (2016) both
- De novo peptide sequencing using CID and HCD spectra pairs (2016) crossref
- Application of de Novo Sequencing to Large-Scale Complex Proteomics Data Sets (2016) crossref
- Novor: Real-Time Peptide de Novo Sequencing Software (2015) both
- UniNovo: a universal tool for de novo peptide sequencing (2013) both
- pNovo+: De Novo Peptide Sequencing Using Complementary HCD and ETD Tandem Mass Spectra (2013) crossref
- De Novo Sequencing and Homology Searching (2012) both