Protein tertiary structure modeling driven by deep learning and contact distance prediction in CASP13
出版年份 2019 全文链接
标题
Protein tertiary structure modeling driven by deep learning and contact distance prediction in CASP13
作者
关键词
-
出版物
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
Volume -, Issue -, Pages -
出版商
Wiley
发表日期
2019-04-15
DOI
10.1002/prot.25697
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- CONFOLD2: improved contact-driven ab initio protein structure modeling
- (2018) Badri Adhikari et al. BMC BIOINFORMATICS
- Smooth orientation-dependent scoring function for coarse-grained protein quality assessment
- (2018) Mikhail Karasikov et al. BIOINFORMATICS
- Assessment of hard target modeling in CASP12 reveals an emerging role of alignment-based contact prediction methods
- (2017) Luciano A. Abriata et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- Assessment of contact predictions in CASP12: Co-evolution and deep learning coming of age
- (2017) Joerg Schaarschmidt et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- Protein structure determination using metagenome sequence data
- (2017) Sergey Ovchinnikov et al. SCIENCE
- Accurate De Novo Prediction of Protein Contact Map by Ultra-Deep Learning Model
- (2017) Sheng Wang et al. PLoS Computational Biology
- UniCon3D:de novoprotein structure prediction using united-residue conformational search via stepwise, probabilistic sampling
- (2016) Debswapna Bhattacharya et al. BIOINFORMATICS
- ConEVA: a toolbox for comprehensive assessment of protein contacts
- (2016) Badri Adhikari et al. BMC BIOINFORMATICS
- DeepQA: improving the estimation of single protein model quality with deep belief networks
- (2016) Renzhi Cao et al. BMC BIOINFORMATICS
- 3D genome structure modeling by Lorentzian objective function
- (2016) Tuan Trieu et al. NUCLEIC ACIDS RESEARCH
- 3Drefine: an interactive web server for efficient protein structure refinement
- (2016) Debswapna Bhattacharya et al. NUCLEIC ACIDS RESEARCH
- Evaluation of free modeling targets in CASP11 and ROLL
- (2016) Lisa N. Kinch et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- Critical assessment of methods of protein structure prediction: Progress and new directions in round XI
- (2016) John Moult et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- ProQ3: Improved model quality assessments using Rosetta energy terms
- (2016) Karolis Uziela et al. Scientific Reports
- Large-scale model quality assessment for improving protein tertiary structure prediction
- (2015) Renzhi Cao et al. BIOINFORMATICS
- Massive integration of diverse protein quality assessment methods to improve template based modeling in CASP11
- (2015) Renzhi Cao et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- New encouraging developments in contact prediction: Assessment of the CASP11 results
- (2015) Bohdan Monastyrskyy et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- CONFOLD: Residue-residue contact-guidedab initioprotein folding
- (2015) Badri Adhikari et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- De novo protein conformational sampling using a probabilistic graphical model
- (2015) Debswapna Bhattacharya et al. Scientific Reports
- CCMpred—fast and precise prediction of protein residue–residue contacts from correlated mutations
- (2014) Stefan Seemayer et al. BIOINFORMATICS
- SSpro/ACCpro 5: almost perfect prediction of protein secondary structure and relative solvent accessibility using profiles, machine learning and structural similarity
- (2014) C. N. Magnan et al. BIOINFORMATICS
- FreeContact: fast and free software for protein contact prediction from residue co-evolution
- (2014) László Kaján et al. BMC BIOINFORMATICS
- Voronota: A fast and reliable tool for computing the vertices of the Voronoi diagram of atomic balls
- (2014) Kliment Olechnovič et al. JOURNAL OF COMPUTATIONAL CHEMISTRY
- Fast pseudolikelihood maximization for direct-coupling analysis of protein structure from many homologous amino-acid sequences
- (2014) Magnus Ekeberg et al. JOURNAL OF COMPUTATIONAL PHYSICS
- Large-scale reconstruction of 3D structures of human chromosomes from chromosomal contact data
- (2014) Tuan Trieu et al. NUCLEIC ACIDS RESEARCH
- Designing and evaluating the MULTICOM protein local and global model quality prediction methods in the CASP10 experiment
- (2014) Renzhi Cao et al. BMC STRUCTURAL BIOLOGY
- lDDT: a local superposition-free score for comparing protein structures and models using distance difference tests
- (2013) Valerio Mariani et al. BIOINFORMATICS
- FFAS-3D: improving fold recognition by including optimized structural features and template re-ranking
- (2013) Dong Xu et al. BIOINFORMATICS
- Designing and benchmarking the MULTICOM protein structure prediction system
- (2013) Jilong Li et al. BMC STRUCTURAL BIOLOGY
- Predicting protein residue–residue contacts using deep networks and boosting
- (2012) Jesse Eickholt et al. BIOINFORMATICS
- Improved model quality assessment using ProQ2
- (2012) Arjun Ray et al. BMC BIOINFORMATICS
- APOLLO: a quality assessment service for single and multiple protein models
- (2011) Z. Wang et al. BIOINFORMATICS
- PSICOV: precise structural contact prediction using sparse inverse covariance estimation on large multiple sequence alignments
- (2011) David T. Jones et al. BIOINFORMATICS
- HHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment
- (2011) Michael Remmert et al. NATURE METHODS
- HMMER web server: interactive sequence similarity searching
- (2011) R. D. Finn et al. NUCLEIC ACIDS RESEARCH
- Protein 3D Structure Computed from Evolutionary Sequence Variation
- (2011) Debora S. Marks et al. PLoS One
- Direct-coupling analysis of residue coevolution captures native contacts across many protein families
- (2011) F. Morcos et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- MULTICOM: a multi-level combination approach to protein structure prediction and its assessments in CASP8
- (2010) Z. Wang et al. BIOINFORMATICS
- Hidden Markov model speed heuristic and iterative HMM search procedure
- (2010) L Steven Johnson et al. BMC BIOINFORMATICS
- I-TASSER: a unified platform for automated protein structure and function prediction
- (2010) Ambrish Roy et al. Nature Protocols
- A Novel Side-Chain Orientation Dependent Potential Derived from Random-Walk Reference State for Protein Fold Selection and Structure Prediction
- (2010) Jian Zhang et al. PLoS One
- Rapid model quality assessment for protein structure predictions using the comparison of multiple models without structural alignments
- (2009) L. J. McGuffin et al. BIOINFORMATICS
- PreDisorder: ab initio sequence-based prediction of protein disordered regions
- (2009) Xin Deng et al. BMC BIOINFORMATICS
- Sequence context-specific profiles for homology searching
- (2009) A. Biegert et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Profile Comparer: a program for scoring and aligning profile hidden Markov models
- (2008) M. Madera BIOINFORMATICS
- MUSTER: Improving protein sequence profile-profile alignments by using multiple sources of structure information
- (2008) Sitao Wu et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- A multi-template combination algorithm for protein comparative modeling
- (2008) Jianlin Cheng BMC STRUCTURAL BIOLOGY
- OPUS-PSP: An Orientation-dependent Statistical All-atom Potential Derived from Side-chain Packing
- (2007) Mingyang Lu et al. JOURNAL OF MOLECULAR BIOLOGY
- Pcons: A neural-network-based consensus predictor that improves fold recognition
- (2002) Jesper Lundström et al. PROTEIN SCIENCE
Add your recorded webinar
Do you already have a recorded webinar? Grow your audience and get more views by easily listing your recording on Peeref.
Upload NowAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started