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There are 6 papers published in subject: > since this site started. |
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1. Comparison of Sequence and Structure of Loop Regions in Lipases: Discovery of a Novel Mutable Domain | |||
Xu Yun,Shen Kunlong,Hu Suyuan,Wu Hongyi,Zhou Zhiliang,You Yuanming,Zhao Yi-Lei | |||
Biology 03 March 2014 | |||
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Abstract:Lipases (EC 3.1.1.3) possess two critical conformations, "open" and "close", during their catalytic process. The conformational changes, caused by the flexible loop regions in the enzymes, determine selectivity, regioselectivity and stereoselectivity of substrates in the enzymatic reactions. However, the principles beneath the phenomenon have not been clearly understood thoroughly yet, in terms of mutability on these loop regions. This paper employed both sequence and structure bioinformatical methods to study lipases available in database, especially for loop regions such as the 'lid' domain that was widely reported to connect substrate selectivity. Unsurprisingly, the 'lid' domain is quite mutable in a group of lipases which are in a moderate similarity for sequence and structure. However, we have found a more mutable, even the most mutable, domain among these loop regions. Loop 9, a very close to C terminus, is ranked top 1. The new discovery may rationalize the coupling effect from colipase. | |||
TO cite this article:Xu Yun,Shen Kunlong,Hu Suyuan, et al. Comparison of Sequence and Structure of Loop Regions in Lipases: Discovery of a Novel Mutable Domain[OL].[ 3 March 2014] http://en.paper.edu.cn/en_releasepaper/content/4587910 |
2. The exploration of mammalian mitochondrial genes through integrating multiple lines of genome-wide biological evidence | |||
Xu Jiabao,Wang Sunpeng,Zhang Yizheng,Li Xiao | |||
Biology 29 December 2011 | |||
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Abstract:Mitochondria are a vital organelle of eukaryotic cells. Many diseases are caused by the mitochondrial gene mutation , therefore, there is an urgent requirement to explore the proteins of mitochondrion. In this paper we have created a list of 1086 human mitochondrial genes by combining 13 datasets from publications or genomic experiments. Then we created a functional linkage network among mitochondrial genes by integrating multiple lines of biological evidence, and utilized the network to predict the function of the mitochondrial genes, including identifying some novel components involved in the KEGG (Kyoto Encyclopedia of Genes and Genomes) pathways and the MIPS complexes. Our results indicated that it is very useful to study mitochondrial biology and disease by integrated genomic and proteomic datasets. | |||
TO cite this article:Xu Jiabao,Wang Sunpeng,Zhang Yizheng, et al. The exploration of mammalian mitochondrial genes through integrating multiple lines of genome-wide biological evidence[OL].[29 December 2011] http://en.paper.edu.cn/en_releasepaper/content/4458493 |
3. PlaPID: a database of protein-protein interactions in plants | |||
Min Mingwei,Zheng Wen,Haoyang Cai,Hu Han,Zhang Yizheng,Li Xiao | |||
Biology 29 December 2011 | |||
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Abstract:PlaPID (Plant Protein Interaction Database) is a searchable database for protein-protein interactions in plants. It associates high-confidence information derived from published literatures and several databases. PlaPID aims to provide a reference and upgradeable database through comprehensive web services for studying plant protein interactions. The PlaPID database is freely accessible at http://www.PlaPID.org. | |||
TO cite this article:Min Mingwei,Zheng Wen,Haoyang Cai, et al. PlaPID: a database of protein-protein interactions in plants[OL].[29 December 2011] http://en.paper.edu.cn/en_releasepaper/content/4458490 |
4. Origin, evolution and functional diversity of bHLH gene family: insights from comparative genomics and interactomics | |||
Min Mingwei,Xu Junli,Yizheng Zhang,Yue Bisong,Li Xiao | |||
Biology 29 December 2011 | |||
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Abstract:The basic helix-loop-helix (bHLH) proteins make up of a complex multigene family of transcription factors that play the important roles in many biological processes. Although much effort has been made on their functional roles, their evolutionary origin and functional diversity remain to be clarified. In this study, we compared genomes and interactomes of bHLH gene families from model organisms such as human, fly, worm, yeast and Arabidopsis to shed light on origin, evolution and functional diversity of this gene family, inferring that bHLHs might origin in prokaryotes and undergo divergence in different linage because of distinct evolutionary force. | |||
TO cite this article:Min Mingwei,Xu Junli,Yizheng Zhang, et al. Origin, evolution and functional diversity of bHLH gene family: insights from comparative genomics and interactomics[OL].[29 December 2011] http://en.paper.edu.cn/en_releasepaper/content/4458487 |
5. The conservative gene regulatory network in HK97 and λ phages | |||
Ai Duiyuan,Qi Yanjiao | |||
Biology 08 June 2009 | |||
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Abstract:Some conservative gene regulatory elements are found in Enterobacteria phage HK97 through sequences alignment, which are very similar to λ phage. Meanwhile, the regulated genes such as c1-gene, cro-gene, Q-gene, also show homology with λ phage. All of these results suggest hk97’s gene regulatory network is as same as λ phage. It implies this regulatory network is crucial and universal to lambda group. | |||
TO cite this article:Ai Duiyuan,Qi Yanjiao. The conservative gene regulatory network in HK97 and λ phages[OL].[ 8 June 2009] http://en.paper.edu.cn/en_releasepaper/content/32942 |
6. First Spiking Dynamics of Stochastic Neuronal Model with Optimal Control | |||
Wu Yongjun | |||
Biology 23 February 2009 | |||
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Abstract:First-spiking dynamics of optimally controlled neuron under stimulation of colored noise is investigated. The stochastic averaging principle is utilized and the model equation is approximated by diffusion process and depicted by It?stochastic differential equation. The control problems for maximizing the resting probability and maximizing the time to first spike are constructed and the dynamical programming equations associated with the corresponding optimization problem are established. The optimal control law is determined. The corresponding backward Kolmogorov equation and Pontryagin equation are established and solved to yield the resting probability and the time to first spike. The analytical results are verified by Monte Carlo simulation. It has shown that the proposed control strategy can suppress the overactive neuronal firing activity and possesses potential application for some neural diseases treatment. | |||
TO cite this article:Wu Yongjun. First Spiking Dynamics of Stochastic Neuronal Model with Optimal Control[OL].[23 February 2009] http://en.paper.edu.cn/en_releasepaper/content/29445 |
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