David T. Jones
#76,320
Most Influential Person Now
British bioinformatician
David T. Jones 's AcademicInfluence.com Rankings
David T. Jones biology Degrees
Biology
#3685
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#5597
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Bioinformatics
#40
World Rank
#40
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Computational Biology
#62
World Rank
#62
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Biology
David T. Jones 's Degrees
- Bachelors Bioinformatics University of Manchester
- PhD Bioinformatics Imperial College London
Why Is David T. Jones Influential?
(Suggest an Edit or Addition)According to Wikipedia, David Tudor Jones is a Professor of Bioinformatics, and Head of Bioinformatics Group in the University College London. He is also the director in Bloomsbury Center for Bioinformatics, which is a joint Research Centre between UCL and Birkbeck, University of London and which also provides bioinformatics training and support services to biomedical researchers. In 2013, he is a member of editorial boards for PLoS ONE, BioData Mining, Advanced Bioinformatics, Chemical Biology & Drug Design, and Protein: Structure, Function and Bioinformatics.
David T. Jones 's Published Works
Number of citations in a given year to any of this author's works
Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author
Published Works
- The rapid generation of mutation data matrices from protein sequences (1992) (6355)
- Protein secondary structure prediction based on position-specific scoring matrices. (1999) (5445)
- The PSIPRED protein structure prediction server (2000) (3368)
- CATH--a hierarchic classification of protein domain structures. (1997) (2556)
- Prediction and functional analysis of native disorder in proteins from the three kingdoms of life. (2004) (1917)
- Improved protein structure prediction using potentials from deep learning (2020) (1753)
- Classification of Intrinsically Disordered Regions and Proteins (2014) (1434)
- Scalable web services for the PSIPRED Protein Analysis Workbench (2013) (1290)
- A new approach to protein fold recognition (1992) (1246)
- GenTHREADER: an efficient and reliable protein fold recognition method for genomic sequences. (1999) (954)
- Golf: an olfactory neuron specific-G protein involved in odorant signal transduction. (1989) (828)
- A model recognition approach to the prediction of all-helical membrane protein structure and topology. (1994) (822)
- Protein structure prediction servers at University College London (2005) (787)
- A large-scale evaluation of computational protein function prediction (2013) (784)
- The PSIPRED Protein Analysis Workbench: 20 years on (2019) (745)
- PSICOV: precise structural contact prediction using sparse inverse covariance estimation on large multiple sequence alignments (2012) (718)
- The DISOPRED server for the prediction of protein disorder (2004) (710)
- Protein superfamilles and domain superfolds (1994) (699)
- Molecular cloning of five GTP-binding protein cDNA species from rat olfactory neuroepithelium. (1987) (626)
- DISOPRED3: precise disordered region predictions with annotated protein-binding activity (2014) (622)
- Improving the accuracy of transmembrane protein topology prediction using evolutionary information (2007) (448)
- Transmembrane protein topology prediction using support vector machines (2009) (414)
- Protein annotation and modelling servers at University College London (2010) (381)
- Improvement of the GenTHREADER Method for Genomic Fold Recognition (2003) (378)
- An expanded evaluation of protein function prediction methods shows an improvement in accuracy (2016) (316)
- MetaPSICOV: combining coevolution methods for accurate prediction of contacts and long range hydrogen bonding in proteins (2014) (313)
- pGenTHREADER and pDomTHREADER: new methods for improved protein fold recognition and superfamily discrimination (2009) (281)
- A guide to machine learning for biologists (2021) (263)
- Assessing the impact of secondary structure and solvent accessibility on protein evolution. (1998) (253)
- Secondary structure prediction with support vector machines (2003) (249)
- The implications of alternative splicing in the ENCODE protein complement (2007) (227)
- The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens (2019) (219)
- What’s in a name? Why these proteins are intrinsically disordered (2013) (216)
- BioRAT: extracting biological information from full-length papers (2004) (206)
- β Propellers: structural rigidity and functional diversity (1999) (206)
- Protein evolution with dependence among codons due to tertiary structure. (2003) (205)
- A systematic comparison of protein structure classifications: SCOP, CATH and FSSP. (1999) (204)
- Accurate de novo structure prediction of large transmembrane protein domains using fragment-assembly and correlated mutation analysis (2012) (188)
- Do transmembrane protein superfolds exist? (1998) (185)
- Combining protein evolution and secondary structure. (1996) (176)
- Getting the most from PSI-BLAST. (2002) (170)
- High precision in protein contact prediction using fully convolutional neural networks and minimal sequence features (2018) (151)
- Rapid protein domain assignment from amino acid sequence using predicted secondary structure (2002) (151)
- Progress in protein structure prediction. (1997) (151)
- Activated Ras displaces 14-3-3 protein from the amino terminus of c-Raf-1. (1996) (147)
- Extending CATH: increasing coverage of the protein structure universe and linking structure with function (2010) (145)
- Potential energy functions for threading. (1996) (143)
- Inferring Function Using Patterns of Native Disorder in Proteins (2007) (137)
- Protein structure prediction using multiple deep neural networks in the 13th Critical Assessment of Protein Structure Prediction (CASP13) (2019) (137)
- Biochemical characterization of three stimulatory GTP-binding proteins. The large and small forms of Gs and the olfactory-specific G-protein, Golf. (1990) (137)
- Chromosomal localization of genes encoding guanine nucleotide-binding protein subunits in mouse and human. (1988) (136)
- Outcome of a workshop on applications of protein models in biomedical research. (2009) (129)
- Expression and structural analysis of 14-3-3 proteins. (1995) (129)
- Protein fold recognition (1993) (129)
- Predicting metal-binding site residues in low-resolution structural models. (2004) (128)
- Using evolutionary trees in protein secondary structure prediction and other comparative sequence analyses. (1996) (127)
- De novo protein design using pairwise potentials and a genetic algorithm (1994) (125)
- 14-3-3 proteins: biological function and domain structure. (1995) (123)
- Deep learning extends de novo protein modelling coverage of genomes using iteratively predicted structural constraints (2018) (116)
- Continual production of phosphatidic acid by phospholipase D is essential for antigen-stimulated membrane ruffling in cultured mast cells. (2002) (114)
- De Novo Structure Prediction of Globular Proteins Aided by Sequence Variation-Derived Contacts (2014) (112)
- Protein domain superfolds and superfamilies (1994) (110)
- Evaluation of predictions in the CASP10 model refinement category (2013) (105)
- Prediction of hot spot residues at protein-protein interfaces by combining machine learning and energy-based methods (2009) (104)
- Mechanism of inhibition of protein kinase C by 14-3-3 isoforms. 14-3-3 isoforms do not have phospholipase A2 activity. (1994) (101)
- A method for α‐helical integral membrane protein fold prediction (1994) (100)
- Successful recognition of protein folds using threading methods biased by sequence similarity and predicted secondary structure (1999) (100)
- Modularity of intrinsic disorder in the human proteome (2010) (98)
- The sequence-structure relationship and protein function prediction. (2009) (95)
- Successful ab initio prediction of the tertiary structure of NK‐lysin using multiple sequences and recognized supersecondary structural motifs (1997) (94)
- Design of metalloproteins and novel protein folds using variational autoencoders (2018) (90)
- Protein function prediction by massive integration of evolutionary analyses and multiple data sources (2013) (90)
- Antibodies against the major brain isoforms of 14-3-3 protein. An antibody specific for the N-acetylated amino-terminus of a protein. (1993) (89)
- Prediction of interresidue contacts with DeepMetaPSICOV in CASP13 (2019) (88)
- Beta propellers: structural rigidity and functional diversity. (1999) (88)
- Predictions of Hot Spot Residues at Protein-Protein Interfaces Using Support Vector Machines (2011) (85)
- FFPred 3: feature-based function prediction for all Gene Ontology domains (2016) (84)
- Protein fold recognition by sequence threading: tools and assessment techniques (1996) (83)
- G protein mRNA mapped in rat brain by in situ hybridization. (1988) (79)
- Sequence patterns associated with disordered regions in proteins (2004) (79)
- Isolation and Comparative Transcriptome Analysis of Human Fetal and iPSC-Derived Cone Photoreceptor Cells (2017) (76)
- Bioinformatics: Genes, Proteins and Computers (2007) (73)
- Insights into the regulation of intrinsically disordered proteins in the human proteome by analyzing sequence and gene expression data (2009) (72)
- Prediction of progress at last (1991) (70)
- Predicting Transmembrane Helix Packing Arrangements using Residue Contacts and a Force-Directed Algorithm (2010) (68)
- Predicting reliable regions in protein alignments from sequence profiles. (2003) (67)
- Protein structure prediction using multiple deep neural networks in CASP13. (2019) (66)
- Improving sequence-based fold recognition by using 3D model quality assessment (2005) (66)
- Detecting pore-lining regions in transmembrane protein sequences (2012) (65)
- Characterization of 14-3-3 proteins in adrenal chromaffin cells and demonstration of isoform-specific phospholipid binding. (1994) (64)
- Membrane protein orientation and refinement using a knowledge-based statistical potential (2013) (62)
- FFPred: an integrated feature-based function prediction server for vertebrate proteomes (2008) (62)
- Setting the standards for machine learning in biology (2019) (62)
- Genome3D: a UK collaborative project to annotate genomic sequences with predicted 3D structures based on SCOP and CATH domains (2012) (61)
- Outcome of a workshop on archiving structural models of biological macromolecules. (2006) (59)
- Applying Agents to Bioinformatics in GeneWeaver (2000) (59)
- Accurate contact predictions using covariation techniques and machine learning (2015) (58)
- Computer-assisted protein domain boundary prediction using the DomPred server. (2007) (57)
- Recurring structural motifs in proteins with different functions (1993) (56)
- Improved protein contact predictions with the MetaPSICOV2 server in CASP12 (2017) (55)
- PASSML: combining evolutionary inference and protein secondary structure prediction (1998) (55)
- Predicting human protein function with multi-task deep neural networks (2018) (54)
- Protein structure prediction in the postgenomic era. (2000) (54)
- What are the baselines for protein fold recognition? (2001) (54)
- Folding in lipid membranes (FILM): A novel method for the prediction of small membrane protein 3D structures (2003) (53)
- The impact of AlphaFold2 one year on (2022) (50)
- FFPred 2.0: Improved Homology-Independent Prediction of Gene Ontology Terms for Eukaryotic Protein Sequences (2013) (49)
- Protein topology from predicted residue contacts (2012) (47)
- The Genomic Threading Database: a comprehensive resource for structural annotations of the genomes from key organisms (2004) (47)
- The contribution of intrinsic disorder prediction to the elucidation of protein function. (2013) (46)
- The MEMPACK alpha-helical transmembrane protein structure prediction server (2011) (46)
- Genome3D: exploiting structure to help users understand their sequences (2014) (45)
- EigenTHREADER: analogous protein fold recognition by efficient contact map threading (2017) (45)
- Recent developments in deep learning applied to protein structure prediction (2019) (44)
- PONGO: a web server for multiple predictions of all-alpha transmembrane proteins (2006) (43)
- Membrane protein structural bioinformatics. (2012) (41)
- Secondary structure prediction (2005) (39)
- Towards genome-scale structure prediction for transmembrane proteins (2006) (36)
- Working toward precision medicine: Predicting phenotypes from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges (2017) (36)
- Classifying a protein in the CATH database of domain structures. (1998) (36)
- Computational Methods for Annotation Transfers from Sequence. (2016) (35)
- Extending genome-scale de novo protein modelling coverage using iterative deep learning-based prediction of structural constraints (2018) (35)
- A method for alpha-helical integral membrane protein fold prediction. (1994) (32)
- THREADER : Protein Sequence Threading by Double Dynamic Programming (1998) (29)
- springScape: visualisation of microarray and contextual bioinformatic data using spring embedding and an "information landscape" (2006) (28)
- Protein folds: towards understanding folding from inspection of native structures. (1995) (28)
- Agent interaction for bioinformatics data management (2001) (27)
- The Genomic Threading Database (2004) (27)
- Framework engineering to produce dominant T cell receptors with enhanced antigen-specific function (2019) (27)
- High throughput profile-profile based fold recognition for the entire human proteome (2006) (25)
- Protein function prediction is improved by creating synthetic feature samples with generative adversarial networks (2020) (25)
- Evaluating the potential of using fold-recognition models for molecular replacement. (2001) (24)
- Recurrence of a binding motif? (1993) (23)
- The role of specific isoforms of 14-3-3 protein in regulating protein kinase activity in the brain. (1992) (23)
- Membrane Protein Structure Prediction (2009) (22)
- ISPIDER Central: an integrated database web-server for proteomics (2008) (21)
- Purification of 14-3-3 protein and analysis of isoforms in chicken brain. (1994) (20)
- Expression of G-protein alpha subunits in rat olfactory neuroepithelium: candidates for olfactory signal transduction. (1988) (18)
- Docking protein domains in contact space (2006) (18)
- Protein Structure Prediction in Genomics (2001) (18)
- Increasing the accuracy of single sequence prediction methods using a deep semi-supervised learning framework (2021) (17)
- Using neural networks and evolutionary information in decoy discrimination for protein tertiary structure prediction (2008) (17)
- Prediction of inter-residue contacts with DeepMetaPSICOV in CASP13 (2019) (16)
- Computational Resources for the Prediction and Analysis of Native Disorder in Proteins (2010) (16)
- Opportunities and limitations in applying coevolution-derived contacts to protein structure prediction (2014) (16)
- Benchmarking predictions of allostery in liver pyruvate kinase in CAGI4 (2017) (15)
- Protein structures and complexes: what they reveal about the interactions that stabilize them (1993) (15)
- Threading methods for protein structure prediction (2000) (15)
- Design in the DARK: Learning Deep Generative Models for De Novo Protein Design (2022) (15)
- Using AlphaFold for Rapid and Accurate Fixed Backbone Protein Design (2021) (15)
- Ultrafast end-to-end protein structure prediction enables high-throughput exploration of uncharacterized proteins (2022) (14)
- Improving classification in protein structure databases using text mining (2009) (14)
- Accuracy (of Prediction) (2004) (13)
- Expression and characterization of maize ZBP14, a member of a new family of zinc-binding proteins. (1995) (12)
- A Meta-Analysis of Microarray Gene Expression in Mouse Stem Cells: Redefining Stemness (2008) (12)
- A practical guide to protein structure prediction. (2000) (12)
- Deep learning-based prediction of protein structure using learned representations of multiple sequence alignments (2020) (11)
- Learning a functional grammar of protein domains using natural language word embedding techniques (2019) (11)
- Genome3D: integrating a collaborative data pipeline to expand the depth and breadth of consensus protein structure annotation (2019) (11)
- Predictions of Backbone Dynamics in Intrinsically Disordered Proteins Using De Novo Fragment-Based Protein Structure Predictions (2017) (10)
- Extracting Biological Information from Full-length Papers (2003) (10)
- Crohn disease risk prediction—Best practices and pitfalls with exome data (2017) (9)
- Analysis of temporal transcription expression profiles reveal links between protein function and developmental stages of Drosophila melanogaster (2017) (9)
- Towards meeting the Paracelsus Challenge: The design, synthesis, and characterization of paracelsin-43, an alpha-helical protein with over 50% sequence identity to an all-beta protein. (1996) (9)
- Differentiable molecular simulation can learn all the parameters in a coarse-grained force field for proteins (2021) (9)
- An automatic method for assessing structural importance of amino acid positions (2009) (8)
- Protein folds and their recognition from sequence (1996) (7)
- Learning to Speak the Language of Proteins (2003) (7)
- Using deep maxout neural networks to improve the accuracy of function prediction from protein interaction networks (2018) (7)
- Critically assessing the state-of-the-art in protein structure prediction (2001) (7)
- Theoretical approaches to designing novel sequences to fit a given fold. (1995) (7)
- Species and Strain Identification Methods (2005) (7)
- Antibodies against the major brain isoforms of 14-3-3 protein: an antibody specific for the N-acetylated amino-terminus of a protein. (1993) (6)
- Towards structural genomics for transmembrane proteins. (1998) (6)
- Introduction. Bioinformatics: from molecules to systems (2006) (5)
- Assessment of predicted enzymatic activity of α‐N‐acetylglucosaminidase variants of unknown significance for CAGI 2016 (2019) (5)
- Lessons from the CAGI‐4 Hopkins clinical panel challenge (2017) (5)
- Evolutionary Deep Learning to Identify Galaxies in the Zone of Avoidance (2019) (5)
- Cross-cultural adaptation of outcome measures (2000) (4)
- Computational Methods for Predicting Protein-Protein Interactions (2005) (4)
- Bacteriophages of Clostridium (2005) (4)
- Protein structure. Prediction of progress at last. (1991) (4)
- Improving protein function prediction with synthetic feature samples created by generative adversarial networks (2019) (3)
- Classifying a Protein Fold in the CATH Hierarchic Database (1998) (3)
- Physical and chemical properties of nitrate reductase from Candida nitratophila (1989) (3)
- Shared structural motif in proteins (1993) (3)
- Design of metalloproteins and novel protein folds using variational autoencoders (2018) (3)
- Predicting gene ontology annotations from sequence data using kernel-based machine learning algorithms (2004) (3)
- A Logical Framework for Template Creation and Information Extraction (2008) (3)
- MPSA short communications (1988) (3)
- From GeneWeaver to Agmial, in Network Tools and Applications in Biology (2002) (2)
- Near-complete protein structural modelling of the minimal genome. (2020) (2)
- The Genome3D Consortium for Structural Annotations of Selected Model Organisms. (2020) (2)
- Inferring Protein Domain Semantic Roles Using word2vec (2019) (2)
- DMPfold: fast de novo protein model generation from covarying sequences using predicted distances and iterative model building (2018) (2)
- Benchmarking protein secondary structure prediction for protein fold recognition (2003) (2)
- The application of fractal clustering to efficient molecular ray tracing on low-cost computers. (1991) (2)
- Advances in Computational Methods for Transmembrane Protein Structure Prediction (2017) (2)
- From GeneWeaver to Agmial (2002) (2)
- Semi-Supervised Learning of Protein Secondary Structure from Single Sequences (2020) (2)
- Improving the prediction of helix-residue contacts in all-alpha proteins (2008) (1)
- Structural approaches to protein sequence analysis (1993) (1)
- A brief review of protein sequence pattern matching (1992) (1)
- Structural biology. Learning to speak the language of proteins. (2003) (1)
- A Deep Semi-Supervised Framework for Accurate Modelling of Orphan Sequences (2020) (1)
- GeneWeaver : a novel genome annotation system based on software agents (1999) (1)
- Crystallization of a 14-3-3 protein. (1996) (1)
- Modelling and predicting alpha-helical transmembrane structures (1995) (1)
- Progress towards recognising protein folds from amino acid sequence (1993) (1)
- Detecting pore-lining regions in transmembrane protein sequences (2012) (1)
- Minimally Conscious State and Persistent Vegetative State (2019) (1)
- Structure prediction of globular proteins (2008) (1)
- Protein function prediction by massive integration of evolutionary analyses and multiple data sources (2013) (1)
- Machine Learning for the Knowledge Plane (2006) (1)
- Membrane protein orientation and refinement using a knowledge-based statistical potential (2013) (0)
- U.S.-Japan Relations (2010) (0)
- Using Software Agents to Investigate Genomes (1999) (0)
- Predictions of Backbone Dynamics in Intrinsically Disordered Proteins Using De Novo Fragment-Based Protein Structure Predictions (2017) (0)
- Structure and function of 14-3-3 isoforms (1995) (0)
- Extracting Biological Information from Full-length Papers Technical report RN / 03 / 17 (2004) (0)
- Simple jury predicts protein secondary structure best (2003) (0)
- AlphaFold: Improved protein structure prediction using (2019) (0)
- A guide to machine learning for biologists (2021) (0)
- Invited Talk: Docking Protein Domains Using a Contact Map Representation (2006) (0)
- Automatic prediction of functional site regions in low-resolution protein structures (2004) (0)
- Cooperative Information Agents IV, The Future of Information Agents in Cyberspace, Proceedings of the 4th International Workshop on Cooperative Information Agents (2000) (0)
- Prediction of protein-protein and protein-ligand interactions from protein structures (2005) (0)
- Proceedings Network Tools and Applications in Biology (NETTAB'2002) - Agents in Bioinformatics, Italy (2002) (0)
- Identification of Protein Consensus Sequences: book review (1991) (0)
- Sequence Covariation Analysis in Biological Polymers (2019) (0)
- Cortical Circuitry, Networks, and Function (2015) (0)
- Protein motifs and folding recognition (1994) (0)
- Accurate Measurement of Blood Pressure--Reply (2003) (0)
- Bioinformatics and the Y2K Problem (1999) (0)
- Merizo: A rapid and accurate domain segmentation method using invariant point attention (2023) (0)
- OP-CBIO170224 2684..2690 (2017) (0)
- Accuracy (of Protein Structure Prediction) (2014) (0)
- 12 – Structural Databases (1997) (0)
- The role of protein structure prediction in drug discovery (2001) (0)
- Cortex Topography and Organization (2015) (0)
- Protein design for decreased disorder: SHERP as an exemplar protein (2016) (0)
- The open cluster NGC 2477. (1997) (0)
- THE ROLE OF ARF AND PHOSPHOLIPASE D IN COAT RECRUITMENT AND REGULATED EXOCYTIC SECRETION (1999) (0)
- On possible use of fold recognition models for molecular replacement (2007) (0)
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