Complex Proteomes Analysis Using Label-Free Mass Spectrometry-Based Quantitative Approach Coupled with Biomedical Knowledge

Abstract : Label-free quantitative proteomics based on mass spectrometry plays an essential role in large-scale analysis of complex proteomes. Meanwhile, quantitative proteomics is not only a way for data processing, but also an important approach for exploring protein functions and interactions in a large-scale manner. An effective method combining quantitation and qualification should be built. To systematically overcome this challenge, we proposed a new label-free quantitative method using spectral counting in the proposed method, the count of shared peptides was considered as an optimized factor to accurately appraise abundance of Isoforms for complex proteomes. Large-scale functional annotations for complex proteomes were extracted by g:Profiler and were assigned to functional clusters. To test the effect of the methods, three groups of mitochondrial proteins including mouse heart mitochondrial dataset, mouse liver mitochondrial dataset and human heart mitochondrial dataset were selected for analysis. According to the biochemical properties of mitochondrial proteins, all functional annotations were assigned to various signalling pathway or functional clusters. We came to draw a conclusion that the strategy with shared peptides overcame inaccurate and overestimated results for low-abundant isoforms to improve accuracy, and quantitative proteomics coupled with biomedical knowledge can thoroughly comprehend functions and relationships for complex proteomes, and contribute to providing a new method for large-scale comparative or diseased proteomics.
Type de document :
Communication dans un congrès
Zhongzhi Shi; Zhaohui Wu; David Leake; Uli Sattler. 8th International Conference on Intelligent Information Processing (IIP), Oct 2014, Hangzhou, China. Springer, IFIP Advances in Information and Communication Technology, AICT-432, pp.20-28, 2014, Intelligent Information Processing VII. 〈10.1007/978-3-662-44980-6_3〉
Liste complète des métadonnées

Littérature citée [16 références]  Voir  Masquer  Télécharger

https://hal.inria.fr/hal-01383312
Contributeur : Hal Ifip <>
Soumis le : mardi 18 octobre 2016 - 14:52:17
Dernière modification le : mardi 18 octobre 2016 - 15:08:52

Fichier

978-3-662-44980-6_3_Chapter.pd...
Fichiers produits par l'(les) auteur(s)

Licence


Distributed under a Creative Commons Paternité 4.0 International License

Identifiants

Citation

Chao Pan, Wenxian Peng, Huilong Duan, Ning Deng. Complex Proteomes Analysis Using Label-Free Mass Spectrometry-Based Quantitative Approach Coupled with Biomedical Knowledge. Zhongzhi Shi; Zhaohui Wu; David Leake; Uli Sattler. 8th International Conference on Intelligent Information Processing (IIP), Oct 2014, Hangzhou, China. Springer, IFIP Advances in Information and Communication Technology, AICT-432, pp.20-28, 2014, Intelligent Information Processing VII. 〈10.1007/978-3-662-44980-6_3〉. 〈hal-01383312〉

Partager

Métriques

Consultations de la notice

65

Téléchargements de fichiers

14