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Improving protein fold recognition by extracting fold-specific features from predicted residue-residue contacts 期刊论文
BIOINFORMATICS, 2017, 卷号: 33, 期号: 23, 页码: 3749-3757
Authors:  Zhu, JW;  Zhang, HC;  Li, SC;  Wang, C;  Kong, LP;  Sun, SW;  Zheng, WM;  Bu, DB;  Bu, DB (reprint author), Chinese Acad Sci, Inst Comp Technol, Key Lab Intelligent Informat Proc, Beijing 100190, Peoples R China.;  Zheng, WM (reprint author), Chinese Acad Sci, Inst Theoret Phys, Beijing 100190, Peoples R China.
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Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis 期刊论文
PLOS GENETICS, 2017, 卷号: 13, 期号: 2, 页码: e1006508
Authors:  Skwark, MJ;  Croucher, NJ;  Puranen, S;  Chewapreecha, C;  Pesonen, M;  Xu, YY;  Turner, P;  Harris, SR;  Beres, SB;  Musser, JM;  Parkhill, J;  Bentley, SD;  Aurell, E;  Corander, J;  Corander, J (reprint author), Wellcome Trust Sanger Inst, Pathogen Gen, Cambridge, England.;  Aurell, E (reprint author), KTH Royal Inst Technol, Dept Computat Biol, Stockholm, Sweden.;  Aurell, E (reprint author), Aalto Univ, Dept Appl Phys & Comp Sci, Espoo, Finland.;  Aurell, E (reprint author), Chinese Acad Sci, Inst Theoret Phys, Beijing, Peoples R China.;  Corander, J (reprint author), Univ Helsinki, Dept Math & Stat, Helsinki, Finland.;  Corander, J (reprint author), Univ Oslo, Dept Biostat, Oslo, Norway.;  Corander, J (reprint author), Univ Cambridge, Dept Vet Med, Cambridge, England.
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Improving residue-residue contact prediction via low-rank and sparse decomposition of residue correlation matrix 期刊论文
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 2016, 卷号: 472, 期号: 1, 页码: 217-222
Authors:  Zhang, HC;  Gao, YJ;  Deng, MH;  Wang, C;  Zhu, JW;  Li, SC;  Zheng, WM;  Bu, DB;  Bu, DB (reprint author), Chinese Acad Sci, Inst Comp Technol, Key Lab Intelligent Informat Proc, Beijing, Peoples R China.;  Zheng, WM (reprint author), Chinese Acad Sci, Inst Theoret Phys, Beijing 100080, Peoples R China.
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Protein Contacts Prediction  Correlation Analysis  Background Correlation Removal  Low-rank And Sparse Matrix Decomposition  
The bulk and the tail of minimal absent words in genome sequences 期刊论文
PHYSICAL BIOLOGY, 2016, 卷号: 13, 期号: 2, 页码: 26004
Authors:  Aurell, E;  Innocenti, N;  Zhou, HJ;  Innocenti, N (reprint author), Hebrew Univ Jerusalem, Sch Comp Sci & Engn, IL-91904 Jerusalem, Israel.
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Minimal Absent Words  Copy-mutation Evolution Model  Random Sequence  
Whole-Genome Based Bacterial Phylogeny and Taxonomy Using Composition Vector (CVTree) Method 会议论文
, 中国浙江杭州
Authors:  Hao BL(郝柏林)
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Whole-Genome Based Bacterial Phylogeny and Taxonomy Using Composition Vector  Method  CVTree  
Whole-genome based Archaea phylogeny and taxonomy: A composition vector approach 期刊论文
CHINESE SCIENCE BULLETIN, 2010, 卷号: 55, 期号: 22, 页码: 2323-2328
Authors:  Sun JianDong;  Xu Zhao;  Hao BaiLin;  Hao, BL , Fudan Univ, Life Res Ctr T, Shanghai 200433, Peoples R China
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Prokaryote Phylogeny  Molecular Phylogeny  Trees  
Composition vector approach to whole-genome-based prokaryotic phylogeny: Success and foundations 期刊论文
JOURNAL OF BIOTECHNOLOGY, 2010, 卷号: 149, 期号: 3, 页码: 115-119
Authors:  Li, Qiang;  Xu, Zhao;  Hao, Bailin;  Hao, BL , Fudan Univ, Dept Phys, T Life Res Ctr, 220 Handan Rd, Shanghai 200433, Peoples R China
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Molecular Phylogeny  Trees  Reconstruction  Sequences  Evolution  Taxonomy  
Composition vector approach to whole-genome-based prokaryotic phylogeny: Success and foundations 会议论文
JOURNAL OF BIOTECHNOLOGY, Shanghai, PEOPLES R CHINA, JUN, 2009
Authors:  Li, QA;  Xu, Z;  Hao, BL
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MOLECULAR PHYLOGENY  TREES  RECONSTRUCTION  SEQUENCES  EVOLUTION  TAXONOMY  
CVTree update: a newly designed phylogenetic study platform using composition vectors and whole genomes 期刊论文
NUCLEIC ACIDS RESEARCH, 2009, 卷号: 37, 期号: suppl.2, 页码: W174-W178
Authors:  Xu, Zhao;  Hao, Bailin;  Xu, Z , Fudan Univ, T Life Res Ctr, 220 Handan Rd, Shanghai 200433, Peoples R China
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Prokaryote Phylogeny  Molecular Phylogeny  Trees  Reconstruction  Life  Tool  
A fungal phylogeny based on 82 complete genomes using the composition vector method 期刊论文
BMC EVOLUTIONARY BIOLOGY, 2009, 卷号: 9, 期号: 195, 页码: -
Authors:  Wang, Hao;  Xu, Zhao;  Gao, Lei;  Hao, Bailin;  Hao, BL , Fudan Univ, Dept Phys, T Life Res Ctr, Shanghai 200433, Peoples R China
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Paracoccidioides-brasiliensis  Prokaryote Phylogeny  Tree  Reconstruction  Ascomycota  Plant  Life  Classification  Incongruence  Systematics