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SCI期刊论文 [15]
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Template-based and free modeling of I-TASSER and QUARK pipelines using predicted contact maps in CASP12
期刊论文
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, 2018, 卷号: 86, 页码: 136-151
Authors:
Zhang, CX
;
Mortuza, SM
;
He, BJ
;
Wang, YT
;
Zhang, Y
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Submit date:2018/12/27
PROTEIN-STRUCTURE PREDICTION
RESIDUE CONTACTS
SEQUENCE
ALIGNMENTS
ACCURACY
NETWORKS
ROLL
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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Submit date:2017/12/21
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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Submit date:2017/12/21
Molecular dynamics simulation study of the "stay or leave" problem for two magnesium ions in gene transcription
期刊论文
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, 2017, 卷号: 85, 期号: 6, 页码: 1002-1007
Authors:
Wu, SG
;
Wu, SG (reprint author), Sichuan Normal Univ, Coll Chem & Mat Sci, Chengdu 610066, Peoples R China.
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Submit date:2017/12/21
Molecular Dynamics Simulation
T7 Rna Polymerase
Magnesium Ion
Transcription Mechanism
Free Energy
Mechanism of NTP Binding to the Active Site of T7 RNA Polymerase Revealed by Free-Energy Simulation
期刊论文
BIOPHYSICAL JOURNAL, 2017, 卷号: 112, 期号: 11, 页码: 2253-2260
Authors:
Wu, SG
;
Li, LC
;
Li, Q
;
Wu, SG (reprint author), Sichuan Normal Univ, Coll Chem & Mat Sci, Chengdu, Peoples R China.
;
Wu, SG (reprint author), Chinese Acad Sci, Inst Theoret Phys, State Key Lab Theoret Phys, Beijing, Peoples R China.
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Submit date:2017/12/21
NeBcon: protein contact map prediction using neural network training coupled with naiive Bayes classifiers
期刊论文
BIOINFORMATICS, 2017, 卷号: 33, 期号: 15, 页码: 2296-2306
Authors:
He, BJ
;
Mortuza, SM
;
Wang, YT
;
Shen, HB
;
Zhang, Y
;
Zhang, Y (reprint author), Univ Michigan, Dept Computat Med & Bioinformat, Ann Arbor, MI 48109 USA.
;
Zhang, Y (reprint author), Univ Michigan, Dept Biol Chem, Ann Arbor, MI 48109 USA.
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Submit date:2017/12/21
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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Submit date:2017/10/13
Protein Contacts Prediction
Correlation Analysis
Background Correlation Removal
Low-rank And Sparse Matrix Decomposition
Different nanostructures caused by competition of intra- and inter-beta-sheet interactions in hierarchical self-assembly of short peptides
期刊论文
JOURNAL OF COLLOID AND INTERFACE SCIENCE, 2016, 卷号: 464, 页码: 219-228
Authors:
Zhou, P
;
Deng, L
;
Wang, YT
;
Lu, JR
;
Xu, H
;
Wang, YT (reprint author), Chinese Acad Sci, Inst Theoret Phys, State Key Lab Theoret Phys, 55 East Zhongguancun Road,POB 2735, Beijing 100190, Peoples R China.
Adobe PDF(3072Kb)
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Submit date:2017/10/13
Short Peptides
Self-assembly
Nanostructures
Intermolecular Interactions
Molecular Packing Modes
Molecular Dynamics
Interplay between Intrinsic Conformational Propensities and Intermolecular Interactions in the Self-Assembly of Short Surfactant-like Peptides Composed of Leucine/Isoleucine
期刊论文
LANGMUIR, 2016, 卷号: 32, 期号: 18, 页码: 4662-4672
Authors:
Zhou, P
;
Deng, L
;
Wang, YT
;
Lu, JR
;
Xu, H
;
Xu, H (reprint author), China Univ Petr East China, State Key Lab Heavy Oil Proc, 66 Changjiang West Rd, Qingdao, Peoples R China.
;
Xu, H (reprint author), China Univ Petr East China, Ctr Bioengn & Biotechnol, 66 Changjiang West Rd, Qingdao, Peoples R China.
;
Wang, YT (reprint author), Chinese Acad Sci, Inst Theoret Phys, 55 East Zhongguancun Rd, Beijing, Peoples R China.
;
Lu, JR (reprint author), Univ Manchester Inst, Sch Phys & Astron, Phys Biol Lab, Manchester M13 9PL, Lancs, England.
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Submit date:2017/10/13
Data quality for the inverse Ising problem
期刊论文
JOURNAL OF PHYSICS A-MATHEMATICAL AND THEORETICAL, 2016, 卷号: 49, 期号: 38, 页码: 384001
Authors:
Decelle, A
;
Ricci-Tersenghi, F
;
Zhang, P
;
Ricci-Tersenghi, F (reprint author), Univ Roma La Sapienza, Dipartimento Fis, Ist Nazl Fis Nucl, Sez Roma1, Piazzale Aldo Moro 5, I-00185 Rome, Italy.
;
Ricci-Tersenghi, F (reprint author), Univ Roma La Sapienza, CNR Nanotec, I-00185 Rome, Italy.
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Submit date:2017/10/13
Statistical Inference
Inverse Ising Problem
Big Data
Parallel Dynamics
Effective Rank