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List of works by Michael Sternberg

3D-Garden: a system for modelling protein-protein complexes based on conformational refinement of ensembles generated with the marching cubes algorithm.

scientific article published on 7 March 2008

3DLigandSite: predicting ligand-binding sites using similar structures

scientific article

A combinational approach to the prediction of the tertiary fold of globular proteins ⬇️

scientific article published on 01 October 1982

A common TMPRSS2 variant has a protective effect against severe COVID-19

scientific article published on 10 January 2022

A continuum model for protein-protein interactions: application to the docking problem.

scientific article published in July 1995

A general approach for developing system-specific functions to score protein-ligand docked complexes using support vector inductive logic programming.

scientific article published on December 2007

A highly conserved program of neuronal microexons is misregulated in autistic brains

scientific article published on December 2014

A large-scale evaluation of computational protein function prediction

scientific article

A molecular model for the enzyme cytochrome P450(17 alpha), a major target for the chemotherapy of prostatic cancer.

scientific article

A new structural model of the acid-labile subunit: pathogenetic mechanisms of short stature-causing mutations ⬇️

scientific article published on October 12, 2012

A novel binding site in catalase is suggested by structural similarity to the calycin superfamily.

scientific article published in February 1996

A novel logic-based approach for quantitative toxicology prediction.

scientific article

A polygenic biomarker to identify patients with severe hypercholesterolemia of polygenic origin

scientific article published on 19 April 2020

A predicted three-dimensional structure for the carcinoembryonic antigen (CEA)

scientific article published on 01 April 1992

A predicted three-dimensional structure of human cytochrome P450: implications for substrate specificity

scientific article published on 01 February 1991

A simple method to generate non-trivial alternate alignments of protein sequences.

scientific article published in June 1991

A structural census of metabolic networks for E. coli

scientific article published on 01 November 2001

A three-dimensional molecular template for substrates of human cytochrome P450 involved in debrisoquine 4-hydroxylation ⬇️

scientific article published on December 1, 1991

AMBIENT: Active Modules for Bipartite Networks--using high-throughput transcriptomic data to dissect metabolic response

scientific article

AlloPred: prediction of allosteric pockets on proteins using normal mode perturbation analysis

scientific article published on 23 October 2015

An analysis of conformational changes on protein-protein association: implications for predictive docking.

scientific article published in April 1999

An analysis of the structure of triose phosphate isomerase and its comparison with lactate dehydrogenase ⬇️

scientific article published on February 25, 1978

An analysis of the three-dimensional structure of chicken triose phosphate isomerase

scientific article published on January 1, 1977

An approach to improving multiple alignments of protein sequences using predicted secondary structure

scientific article published on 01 April 2001

An expanded evaluation of protein function prediction methods shows an improvement in accuracy ⬇️

scientific article

Analysis and classification of disulphide connectivity in proteins. The entropic effect of cross-linkage

scientific article published on 01 December 1994

Analysis and prediction of protein beta-sheet structures by a combinatorial approach

scientific article published on 01 June 1980

Analysis and prediction of structural motifs in the glycolytic enzymes ⬇️

scientific article published on June 26, 1981

Analysis and prediction of the packing of alpha-helices against a beta-sheet in the tertiary structure of globular proteins

scientific article published on 01 April 1982

Analysis of Phenetic Trees Based on Metabolic Capabilites Across the Three Domains of Life

article

Analysis of structural similarities between brain Thy-1 antigen and immunoglobulin domains. Evidence for an evolutionary relationship and a hypothesis for its functional significance ⬇️

scientific article published on April 1, 1981

Analysis of the relationship between side-chain conformation and secondary structure in globular proteins

scientific article published on 01 November 1987

Analysis of the tertiary structure of protein beta-sheet sandwiches

scientific article published on 01 May 1981

Application of scaled particle theory to model the hydrophobic effect: implications for molecular association and protein stability

scientific article published on 01 March 1994

ArchDB: automated protein loop classification as a tool for structural genomics.

scientific article published on January 2004

Assessing protein co-evolution in the context of the tree of life assists in the prediction of the interactome.

scientific article published in September 2005

Automated classification of antibody complementarity determining region 3 of the heavy chain (H3) loops into canonical forms and its application to protein structure prediction.

scientific article

Automated discovery of structural signatures of protein fold and function.

scientific article

Automated structure-based prediction of functional sites in proteins: applications to assessing the validity of inheriting protein function from homology in genome annotation and to protein docking.

scientific article

Benchmarking PSI-BLAST in genome annotation.

scientific article

Can Predicted Protein 3D Structures Provide Reliable Insights into whether Missense Variants Are Disease Associated?

scientific article published on 14 April 2019

Capturing expert knowledge with argumentation: a case study in bioinformatics.

scientific article

Chemical synthesis, structural modeling, and biological activity of the epidermal growth factor-like domain of human cripto.

scientific article published on April 1997

Computation Resources for Molecular Biology: A Special Issue.

scientific article published on 2 February 2016

Computation Resources for Molecular Biology: Special Issue 2017.

scientific article published on 23 December 2016

Computation Resources for Molecular Biology: Special Issue 2018

scientific article published on 31 May 2018

Computation Resources for Molecular Biology: Special Issue 2019

scientific article published on 30 May 2019

Conformational analysis of the first observed non-proline cis-peptide bond occurring within the complementarity determining region (CDR) of an antibody

scientific article published on 01 December 1998

Crystallographic studies of the dynamic properties of lysozyme

scientific article published on August 16, 1979

Discovering rules for protein-ligand specificity using support vector inductive logic programming.

scientific article published on 2 July 2009

Drug design by machine learning: the use of inductive logic programming to model the structure-activity relationships of trimethoprim analogues binding to dihydrofolate reductase ⬇️

scientific article published on December 1, 1992

Dynamic information from protein crystallography. An analysis of temperature factors from refinement of the hen egg-white lysozyme structure

scientific article published on May 25, 1979

Electrostatic interactions in globular proteins. Different dielectric models applied to the packing of alpha-helices

article

Evaluation of the 3D-Dock protein docking suite in rounds 1 and 2 of the CAPRI blind trial.

scientific article

Evaluation of the sequence template method for protein structure prediction. Discrimination of the (beta/alpha)8-barrel fold.

scientific article

Evolution of enzymes in metabolism: a network perspective.

scientific article

Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types

scientific article

Exploring the extremes of sequence/structure space with ensemble fold recognition in the program Phyre

scientific article (publication date: 15 February 2008)

EzMol: A Web Server Wizard for the Rapid Visualization and Image Production of Protein and Nucleic Acid Structures.

scientific article published on 31 January 2018

Flexible protein sequence patterns

scientific article published on 01 March 1990

Functional assignment of Mycobacterium tuberculosis proteome revealed by genome-scale fold-recognition

scientific article published on January 2013

GWYRE: A Resource for Mapping Variants onto Experimental and Modeled Structures of Human Protein Complexes

scientific article published on 27 April 2022

Generating protein three-dimensional fold signatures using inductive logic programming ⬇️

scientific article published on December 1, 2001

Genetic loci influencing kidney function and chronic kidney disease

scientific article

Genetic variation in SCN10A influences cardiac conduction

scientific article

Genome-wide association study identifies loci influencing concentrations of liver enzymes in plasma

scientific article published on 16 October 2011

Genome3D: a UK collaborative project to annotate genomic sequences with predicted 3D structures based on SCOP and CATH domains

scientific article

Genome3D: exploiting structure to help users understand their sequences

scientific article

Genome3D: integrating a collaborative data pipeline to expand the depth and breadth of consensus protein structure annotation

scientific article published on 01 January 2020

IGSF10 mutations dysregulate gonadotropin-releasing hormone neuronal migration resulting in delayed puberty

scientific article

Identification and analysis of domains in proteins

scientific article (publication date: June 1995)

Identification of disease-associated loci using machine learning for genotype and network data integration

scientific article published on 01 December 2019

Identification of sequence motifs from a set of proteins with related function.

scientific article published in February 1994

In Silico Analysis of the Small Molecule Content of Outer Membrane Vesicles Produced by Bacteroides thetaiotaomicron Indicates an Extensive Metabolic Link between Microbe and Host.

scientific article published on 8 December 2017

Incorporating Virtual Reactions into a Logic-based Ligand-based Virtual Screening Method to Discover New Leads

scientific article published on 20 March 2015

Inductive logic programming used to discover topological constraints in protein structures

scientific article published on January 1, 1994

Insights into protein flexibility: The relationship between normal modes and conformational change upon protein-protein docking

scientific article

Inter-species sequence conservation of single-spanning transmembrane regions

scientific article published on 01 October 1990

Interferon: a tertiary structure predicted from amino acid sequences

scientific article published on 01 September 1982

Introduction. Bioinformatics: from molecules to systems.

scientific article

Isolation of a small molecule inhibitor of DNA base excision repair.

scientific article

Landscape of Pleiotropic Proteins Causing Human Disease: Structural and System Biology Insights

scientific article published on 13 December 2016

Machine learning approach for the prediction of protein secondary structure.

scientific article

Misleading local sequence alignments: implications for comparative protein modelling ⬇️

scientific article published on August 1, 1998

Missense3D-DB web catalogue: an atom-based analysis and repository of 4M human protein-coding genetic variants

scientific article published on 27 January 2021

Modeling of protein interactions in genomes

scientific article published on 01 June 2002

Modelling protein docking using shape complementarity, electrostatics and biochemical information

scientific article

Modelling the ATP-binding site of oncogene products, the epidermal growth factor receptor and related proteins ⬇️

scientific article published on October 1, 1984

Modelling the structure and function of enzymes by machine learning

scientific article published on January 1, 1992

Molecular mimicry in liver disease

scientific article published in Nature

Neu receptor dimerization

scientific article published in Nature

New algorithm to model protein-protein recognition based on surface complementarity. Applications to antibody-antigen docking

scientific article published on November 5, 1992

PINALOG: a novel approach to align protein interaction networks--implications for complex detection and function prediction.

scientific article published on 13 March 2012

PML bodies associate specifically with the MHC gene cluster in interphase nuclei ⬇️

scientific article published on 01 October 2001

Partial protein domains: evolutionary insights and bioinformatics challenges.

scientific article

PhenoRank: reducing study bias in gene prioritisation through simulation.

scientific article published on 17 January 2018

PhyreRisk: A Dynamic Web Application to Bridge Genomics, Proteomics and 3D Structural Data to Guide Interpretation of Human Genetic Variants

scientific article published on 07 May 2019

PhyreStorm: A Web Server for Fast Structural Searches Against the PDB.

scientific article

Polyproline-II Helix in Proteins: Structure and Function ⬇️

scientific article published on March 16, 2013

Predicting Protein Dynamics and Allostery Using Multi-Protein Atomic Distance Constraints.

scientific article

Prediction of antigenic determinants and secondary structures of the major AIDS virus proteins.

scientific article

Prediction of protein structure from amino acid sequence

scientific article published in Nature

Prediction of protein-protein interactions by docking methods.

scientific article

Prediction of the conformation and geometry of loops in globular proteins: testing ArchDB, a structural classification of loops.

scientific article

Predictive docking of protein-protein and protein-DNA complexes.

scientific article published in April 1998

Properties of human genes guided by their enrichment in rare and common variants.

scientific article published on 2 December 2017

Protein flexibility, not disorder, is intrinsic to molecular recognition ⬇️

scientific article published on January 11, 2013

Protein folding requires crowd control in a simulated cell.

scientific article

Protein sequences--homologies and motifs

scientific article published on 01 September 1991

Protein-protein interaction sites are hot spots for disease-associated nonsynonymous SNPs.

scientific article published on 27 December 2011

Proteins and domains vary in their tolerance of non-synonymous single nucleotide polymorphisms (nsSNPs).

scientific article published on 25 January 2013

Proteomic analysis of Plasmodium in the mosquito: progress and pitfalls.

scientific article

Proteomic analysis of the Plasmodium male gamete reveals the key role for glycolysis in flagellar motility.

scientific article

Quantitative structure-activity relationships by neural networks and inductive logic programming. I. The inhibition of dihydrofolate reductase by pyrimidines.

scientific article published in August 1994

Rapid refinement of protein interfaces incorporating solvation: application to the docking problem ⬇️

scientific article published on February 13, 1998

Recognition of analogous and homologous protein folds: analysis of sequence and structure conservation 1 1Edited by F. E. Cohen

article

Scaffold hopping in drug discovery using inductive logic programming.

scientific article published on 6 May 2008

Search for rare protein altering variants influencing susceptibility to multiple myeloma

scientific article

Sequencing delivers diminishing returns for homology detection: implications for mapping the protein universe.

scientific article

Similarity in membrane proteins

scientific article published in Nature

Structural and evolutionary analysis of HLA-D-region products

scientific article published in Nature

Structural characterization of the human proteome.

scientific article published on November 2002

Structure prediction. How good are we?

scientific article

Structure-activity relationships derived by machine learning: the use of atoms and their bond connectivities to predict mutagenicity by inductive logic programming

scientific article

Structure-based prediction of protein allostery

scientific article published on 25 October 2017

SuSPect: enhanced prediction of single amino acid variant (SAV) phenotype using network features

scientific article

Support vector inductive logic programming outperforms the naive Bayes classifier and inductive logic programming for the classification of bioactive chemical compounds.

scientific article published on 27 March 2007

Systems analysis of bacterial glycomes

scientific article published on 01 October 2010

The BRCA1 C-terminal domain: structure and function.

scientific article

The C1q receptor site on immunoglobulin G

scientific article published in Nature

The Contribution of Missense Mutations in Core and Rim Residues of Protein-Protein Interfaces to Human Disease

scientific article published on 11 July 2015

The Discovery of Novel 10,11-Dihydro-5H-dibenz[b,f]azepine SIRT2 Inhibitors.

scientific article

The Phyre2 web portal for protein modeling, prediction and analysis

scientific article (publication date: June 2015)

The automatic discovery of structural principles describing protein fold space.

scientific article

The discovery of a highly selective 5,6,7,8-tetrahydrobenzo[4,5]thieno[2,3-d]pyrimidin-4(3H)-one SIRT2 inhibitor that is neuroprotective in an in vitro Parkinson's disease model.

scientific article

The effects of non-synonymous single nucleotide polymorphisms (nsSNPs) on protein-protein interactions.

scientific article

The fine details of evolution

scientific article published in August 2009

The flagellum in malarial parasites.

scientific article

The relationship between the flexibility of proteins and their conformational states on forming protein-protein complexes with an application to protein-protein docking

scientific article published on 01 April 2005

Thienopyrimidinone Based Sirtuin-2 (SIRT2)-Selective Inhibitors Bind in the Ligand Induced Selectivity Pocket.

scientific article

Three dimensional structure of the transmembrane region of the proto-oncogenic and oncogenic forms of the neu protein ⬇️

scientific article published on January 1, 1992

Three-Dimensional Model of Human Nicotinamide Nucleotide Transhydrogenase (NNT) and Sequence-Structure Analysis of its Disease-Causing Variations

scientific article

Towards an automatic method of predicting protein structure by homology: an evaluation of suboptimal sequence alignments

scientific article published on June 1, 1992

Understanding molecular effects of naturally occurring genetic differences.

scientific article published on 20 August 2013

ePlant: Visualizing and Exploring Multiple Levels of Data for Hypothesis Generation in Plant Biology.

scientific article published on 14 August 2017

k-SLAM: accurate and ultra-fast taxonomic classification and gene identification for large metagenomic data sets

scientific article

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