Proceedings of the 2016 International Conference on Biomedical and Biological Engineering

Research on Efficient Algorithm of Peptide Identification and Quantification in Proteomics

Authors
Zhen Wang, Jiyang Zhang, Yunping Zhu, Hongwei Xie
Corresponding Author
Zhen Wang
Available Online July 2016.
DOI
https://doi.org/10.2991/bbe-16.2016.22How to use a DOI?
Keywords
Proteomics, Label-free quantification, XICFinder, Detectability, Reproducibility, Precision.
Abstract
Because of its simple experiment design and low experiment cost, label-free quantitative technology based on mass spectrometry analysis is being used more and more widely. Aiming at peptide identification and quantification, which are pivotal step of the label-free quantitative analysis, we develop an efficient algorithm named XIC Finder based on C++ platform. In term of the peptides which failed to be identified by MS/MS spectrum, we utilize ESP model trained by 20 optimized peptide features with Random Forest method, to predict those peptides detectability and chose the highest scored peptide as the correct peptide. Compared with MaxQuant and IDEAL-Q, other algorithms developed for quantitative MS data, XIC Finder improves the performance of the peptide identification and quantification significantly. Furthermore, we evaluated the reproducibility and precision of XIC Finder by using the replication dataset and the UPS1 standard data set respectively and prove the result is better than other algorithms.
Open Access
This is an open access article distributed under the CC BY-NC license.

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Proceedings
International Conference on Biomedical and Biological Engineering
Part of series
Advances in Biological Sciences Research
Publication Date
July 2016
ISBN
978-94-6252-216-9
ISSN
2468-5747
DOI
https://doi.org/10.2991/bbe-16.2016.22How to use a DOI?
Open Access
This is an open access article distributed under the CC BY-NC license.

Cite this article

TY  - CONF
AU  - Zhen Wang
AU  - Jiyang Zhang
AU  - Yunping Zhu
AU  - Hongwei Xie
PY  - 2016/07
DA  - 2016/07
TI  - Research on Efficient Algorithm of Peptide Identification and Quantification in Proteomics
BT  - International Conference on Biomedical and Biological Engineering
PB  - Atlantis Press
SN  - 2468-5747
UR  - https://doi.org/10.2991/bbe-16.2016.22
DO  - https://doi.org/10.2991/bbe-16.2016.22
ID  - Wang2016/07
ER  -