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■ Abbreviation / Long Form : CASP / Critical Assessment of Structure Prediction

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Total Number of Papers: 85
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Abbreviation:   CASP  (>> Co-occurring Abbreviation)
Long Form:   Critical Assessment of Structure Prediction
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No. Year Title Co-occurring Abbreviation
2019 Semantic workflows for benchmark challenges: Enhancing comparability, reusability and reproducibility. DREAM
2018 An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12. ---
2018 Assessment of data-assisted prediction by inclusion of crosslinking/mass-spectrometry and small angle X-ray scattering data in the 12th Critical Assessment of protein Structure Prediction experiment. CLMS, SAXS
2018 Continuous Automated Model EvaluatiOn (CAMEO) complementing the critical assessment of structure prediction in CASP12. CAMEO
2018 Critical assessment of methods of protein structure prediction (CASP)-Round XII. ---
2018 Protein structure model refinement in CASP12 using short and long molecular dynamics simulations in implicit solvent. MD
2018 Protein structure prediction. ---
2018 RaptorX-Angle: real-value prediction of protein backbone dihedral angles through a hybrid method of clustering and deep learning. MAE, PCC
2017 A Simple and Efficient Protein Structure Refinement Method. ---
10  2017 Accurate De Novo Prediction of Protein Contact Map by Ultra-Deep Learning Model. EC
11  2017 Improving protein disorder prediction by deep bidirectional long short-term memory recurrent neural networks. LSTM
12  2017 Prediction of Local Quality of Protein Structure Models Considering Spatial Neighbors in Graphical Models. GMQ
13  2017 Reduced Fragment Diversity for Alpha and Alpha-Beta Protein Structure Prediction using Rosetta. ---
14  2017 The computational prediction of protein assemblies. ---
15  2016 Assessment of the utility of contact-based restraints in accelerating the prediction of protein structure using molecular dynamics simulations. MD
16  2016 Blind protein structure prediction using accelerated free-energy simulations. MELD
17  2016 Blind testing cross-linking/mass spectrometry under the auspices of the 11th critical assessment of methods of protein structure prediction (CASP11). HD-CLMS, HSA
18  2016 CASP11--An Evaluation of a Modular BCL::Fold-Based Protein Structure Prediction Pipeline. GDT_TS, MS, NMR, NOE
19  2016 Community challenges in biomedical text mining over 10 years: success, failure and the future. BioNLP, NLP
20  2016 DeepQA: improving the estimation of single protein model quality with deep belief networks. QA
21  2016 In silico Identification and Characterization of Protein-Ligand Binding Sites. CAMEO
22  2016 Protein structure prediction using residue- and fragment-environment potentials in CASP11. PRESCO
23  2016 Some of the most interesting CASP11 targets through the eyes of their authors. ---
24  2016 Toolbox for Protein Structure Prediction. ---
25  2016 UniCon3D: de novo protein structure prediction using united-residue conformational search via stepwise, probabilistic sampling. ---
26  2015 General overview on structure prediction of twilight-zone proteins. ---
27  2015 Proteins and Their Interacting Partners: An Introduction to Protein-Ligand Binding Site Prediction Methods. CAMEO
28  2015 Tertiary structural propensities reveal fundamental sequence/structure relationships. PDB, TERMs
29  2014 Assessing the quality of modelled 3D protein structures using the ModFOLD server. MQAPs
30  2014 Assessment of ligand binding site predictions in CASP10. ---
31  2014 Assessment of template-based protein structure predictions in CASP10. TBM
32  2014 Computing the relative stabilities and the per-residue components in protein conformational changes. CCR
33  2014 Critical assessment of methods of protein structure prediction (CASP)--round x. ---
34  2014 Definition and classification of evaluation units for CASP10. EUs, FM, TBM
35  2014 DL-PRO: A Novel Deep Learning Method for Protein Model Quality Assessment. QA
36  2014 Multi-Dimensional Scaling and MODELLER-Based Evolutionary Algorithms for Protein Model Refinement. GDT-TS, MDS
37  2013 3Drefine: consistent protein structure refinement by optimizing hydrogen bonding network and atomic-level energy minimization. HB
38  2013 A study and benchmark of DNcon: a method for protein residue-residue contact prediction using deep networks. ---
39  2013 BeEP Server: Using evolutionary information for quality assessment of protein structure models. ---
40  2013 Detecting protein candidate fragments using a structural alphabet profile comparison approach. ---
41  2013 i3Drefine software for protein 3D structure refinement and its assessment in CASP10. HB
42  2012 A comprehensive overview of computational protein disorder prediction methods. ---
43  2012 FunFOLDQA: a quality assessment tool for protein-ligand binding site residue predictions. AUC, BDT, MCC, ROC
44  2012 Protein structure prediction: challenging targets for CASP10. ---
45  2012 Protein structure validation by generalized linear model root-mean-square deviation prediction. CASD-NMR, GLM, PDB, RMSD
46  2012 Refinement of protein structure homology models via long, all-atom molecular dynamics simulations. MD
47  2011 An automatic method for CASP9 free modeling structure prediction assessment. CS, FM, GDT_TS, QCS
48  2011 Critical assessment of methods of protein structure prediction (CASP)--round IX. ---
49  2011 firestar--advances in the prediction of functionally important residues. ---
50  2011 MUFOLD-WQA: A new selective consensus method for quality assessment in protein structure prediction. QA
51  2011 The IntFOLD server: an integrated web resource for protein fold recognition, 3D model quality assessment, intrinsic disorder prediction, domain prediction and ligand binding site prediction. ---
52  2010 BCL::contact-low confidence fold recognition hits boost protein contact prediction and de novo structure determination. ANNs, PDB, RMSD
53  2010 Consistent refinement of submitted models at CASP using a knowledge-based potential. ---
54  2010 Method for predicting homology modeling accuracy from amino acid sequence alignment: the power function. GDT_TS, PF
55  2010 Protein structure prediction begins well but ends badly. SSE
56  2010 Symmetry-restrained molecular dynamics simulations improve homology models of potassium channels. HMs, MD
57  2009 Protein structure prediction center in CASP8. ---
58  2008 An information measure of the quality of protein secondary structure prediction. SOV
59  2008 I-TASSER server for protein 3D structure prediction. ---
60  2008 The assessment of methods for protein structure prediction. ---
61  2008 The evaluation of protein structure prediction results. ---
62  2007 Ab initio modeling of small proteins by iterative TASSER simulations. CPU, PDB, RMSD
63  2007 Evaluation of the structural quality of modeled proteins by using globularity criteria. ---
64  2007 The protein folding problem: when will it be solved? ---
65  2006 Revisiting the prediction of protein function at CASP6. ---
66  2006 Rigorous performance evaluation in protein structure modelling and implications for computational biology. ---
67  2006 Spritz: a server for the prediction of intrinsically disordered regions in protein sequences using kernel machines. SVM
68  2005 A decade of CASP: progress, bottlenecks and prognosis in protein structure prediction. ---
69  2005 Critical assessment of methods of protein structure prediction (CASP)--round 6. ---
70  2005 Free modeling with Rosetta in CASP6. ---
71  2005 Relationship between multiple sequence alignments and quality of protein comparative models. MSA
72  2004 Prediction and functional analysis of native disorder in proteins from the three kingdoms of life. ---
73  2004 Theoretical model of the three-dimensional structure of a sugar-binding protein from Pyrococcus horikoshii: structural analysis and sugar-binding simulations. ---
74  2003 Critical assessment of methods of protein structure prediction (CASP)-round V. ---
75  2002 Molecular modelling in structural biology. ---
76  2002 Reliability of assessment of protein structure prediction methods. ---
77  2001 Critical assessment of methods of protein structure prediction (CASP): round IV. ---
78  2001 What are the baselines for protein fold recognition? CATH
79  2000 Ab initio protein folding. ---
80  1999 An attempt to analyse progress in fold recognition from CASP1 to CASP3. ---
81  1999 Critical assessment of methods of protein structure prediction (CASP): round III. ---
82  1999 Processing and analysis of CASP3 protein structure predictions. ---
83  1999 Some measures of comparative performance in the three CASPs. ---
84  1997 Critical assessment of methods of protein structure prediction (CASP): round II. ---
85  1997 Evaluation of comparative protein structure modeling by MODELLER-3. ---