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Displaying 1-6 out of 6 total
Reconstruction of Signaling Network from Protein Interactions Based on Function Annotations
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics
By Wei Liu,Dong Li,Yunping Zhu,Hongwei Xie,Fuchu He
Issue Date:March 2013
pp. 514-521
The directionality of protein interactions is the prerequisite of forming various signaling networks, and the construction of signaling networks is a critical issue in the discovering the mechanism of the life process. In this paper, we proposed a novel me...
 
Improving X!Tandem on Peptide Identification from Mass Spectrometry by Self-Boosted Percolator
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics
By Pengyi Yang, Jie Ma, Penghao Wang, Yunping Zhu,Bing B. Zhou, Yee Hwa Yang
Issue Date:September 2012
pp. 1273-1280
A critical component in mass spectrometry (MS)-based proteomics is an accurate protein identification procedure. Database search algorithms commonly generate a list of peptide-spectrum matches (PSMs). The validity of these PSMs is critical for downstream a...
 
A New Recursive Approach for Reconstructing Metabolic Networks from KEGG
Found in: Frontier of Computer Science and Technology, Japan-China Joint Workshop on
By Tingting Zhou, Samuel K.F. Yung, Zhenghua Wang, Yunping Zhu
Issue Date:December 2009
pp. 510-515
The high-quality network reconstruction from metabolites, enzymes and reactions is the first essential step for the studies on the metabolic networks. Previously the approach based on the KEGG/LIGAND database can only reconstruct the organism-level metabol...
 
Revealing the functional modularity of yeast transcriptional regulatory network by using a novel topological measurement
Found in: Computer Science and Information Technology, International Conference on
By Qijun Liu, Zhenghua Wang, Mansheng Li,Dong Li,Yunping Zhu
Issue Date:August 2009
pp. 267-271
It has been reported that function implementations in biological systems, including transcriptional regulatory networks (TRN), show modular architecture. Analyzing functional modularity of biological networks can describe characteristics of function implem...
 
Reconstruction of Signaling Network from Protein Interactions Based on Function Annotations
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
By Dong Li, Fuchu He, Hongwei Xie, Wei Liu, Yunping Zhu
Issue Date:March 2013
pp. 514-521
The directionality of protein interactions is the prerequisite of forming various signaling networks, and the construction of signaling networks is a critical issue in the discovering the mechanism of the life process. In this paper, we proposed a novel me...
     
Improving X!Tandem on Peptide Identification from Mass Spectrometry by Self-Boosted Percolator
Found in: IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
By Bing B. Zhou, Jie Ma, Penghao Wang, Pengyi Yang, Yee Hwa Yang, Yunping Zhu
Issue Date:September 2012
pp. 1273-1280
A critical component in mass spectrometry (MS)-based proteomics is an accurate protein identification procedure. Database search algorithms commonly generate a list of peptide-spectrum matches (PSMs). The validity of these PSMs is critical for downstream a...
     
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