J. Lees

发表

Systematic computational prediction of protein interaction networks

Jonathan G. Lees, C. Orengo, J. A. Ranea, 2011, Physical biology.

CATH: increased structural coverage of functional space

Radka Svobodová Vareková, Su Datt Lam, Jonathan G. Lees, 2020, Nucleic Acids Res..

Transient protein-protein interactions: structural, functional, and network properties.

Jonathan G. Lees, Benoit H. Dessailly, C. Orengo, 2010, Structure.

Assessment of protein domain fusions in human protein interaction networks prediction: application to the human kinetochore model.

C. Orengo, J. Lees, I. Morilla, 2010, New biotechnology.

Gene Function Prediction from Functional Association Networks Using Kernel Partial Least Squares Regression

J. Shawe-Taylor, C. Orengo, J. Bähler, 2015, PloS one.

Functional innovation from changes in protein domains and their combinations.

Ian Sillitoe, Natalie L Dawson, Jonathan G Lees, 2016, Current opinion in structural biology.

Integration of biological data by kernels on graph nodes allows prediction of new genes involved in mitotic chromosome condensation

Alfonso Valencia, Jonathan G. Lees, Martin Krallinger, 2014, Molecular biology of the cell.

Functional classification of CATH superfamilies: a domain-based approach for protein function annotation

David A. Lee, Ian Sillitoe, Christine A. Orengo, 2015, Bioinform..

Structural and Functional View of Polypharmacology

John P. Overington, C. Orengo, J. Lees, 2016, bioRxiv.

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

Jari Björne, Tapio Salakoski, Giorgio Valentini, 2019, Genome Biology.

The evolution of protein functions and networks: a family-centric approach.

Benoit H. Dessailly, Alison L. Cuff, C. Orengo, 2009, Biochemical Society transactions.

Dynamic changes in the brain protein interaction network correlates with progression of Aβ42 pathology in Drosophila

C. Orengo, L. Partridge, J. Lees, 2020, Scientific reports.

Comprehensive analysis of long noncoding RNA expression in dorsal root ganglion reveals cell-type specificity and dysregulation after nerve injury

Jonathan G. Lees, Christine Orengo, Stephen B. McMahon, 2018, Pain.

Dichroism ( SRCD ) Amplitudes and Conventional Circular Dichroism ( CD ) Spectrophotometers

J. Lees, B. Wallace, F. Wien, 2011 .

Protein Structure Classification

Jonathan G. Lees, C. Orengo, J. Lees, 2015, Encyclopedia of Bioinformatics and Computational Biology.

Dynamic changes in the brain protein 1 interaction network correlates with 2 progression of Aβ42 pathology in 3 Drosophila 4

Jonathan G. Lees, Harry M. Scholes, C. Orengo, 2019 .

Functional classification of CATH superfamilies: a domain-based approach for protein function annotation

David A. Lee, Jonathan G. Lees, C. Orengo, 2015, Bioinform..

Protein structure and function analyses to understand the implication of mutually exclusive splicing

Su Datt Lam, C. Orengo, J. Lees, 2018, bioRxiv.

A Domain-Based Machine Learning Approach for Function Prediction using CATH FunFams

C. Orengo, J. Lees, Sayoni Das, 2017 .

BIROn - Birkbeck Institutional Research Online reveal between

Jonathan G. Lees, C. Orengo, J. Lees, 2021 .

Uncovering the Molecular Machinery of the Human Spindle—An Integration of Wet and Dry Systems Biology

Alfonso Valencia, Søren Brunak, Jonathan G. Lees, 2012, PloS one.

Structural and energetic analyses of SARS-CoV-2 N-terminal domain characterise sugar binding pockets and suggest putative impacts of variants on COVID-19 transmission

Su Datt Lam, C. Orengo, F. Fraternali, 2022, Computational and Structural Biotechnology Journal.

Extensive prediction of globular domains in proteins.

David A. Lee, Tony E. Lewis, Su Datt Lam, 2017 .

CDtool-an integrated software package for circular dichroism spectroscopic data processing, analysis, and archiving.

Jonathan G. Lees, Barry R. Smith, J G Lees, 2004, Analytical biochemistry.

Analyses of circular dichroism spectra of membrane proteins

Jonathan G. Lees, R. W. Janes, J. Lees, 2003, Protein science : a publication of the Protein Society.

A reference database for circular dichroism spectroscopy covering fold and secondary structure space

Andrew J. Miles, Jonathan G. Lees, Frank Wien, 2006, Bioinform..

Analysis of temporal transcription expression profiles reveal links between protein function and developmental stages of Drosophila melanogaster

Christine A. Orengo, Jonathan G. Lees, David T. Jones, 2017, PLoS Comput. Biol..

PainNetworks: A web-based resource for the visualisation of pain-related genes in the context of their network associations

Jonathan G. Lees, Ilhem Diboun, Christine Orengo, 2013, PAIN®.

CATH-Gene3D: Generation of the Resource and Its Use in Obtaining Structural and Functional Annotations for Protein Sequences.

Ian Sillitoe, Su Datt Lam, Natalie L Dawson, 2017, Methods in molecular biology.

Gene3D: merging structure and function for a Thousand genomes

Christine A. Orengo, Jonathan G. Lees, Andrew B. Clegg, 2009, Nucleic Acids Res..

Identifying and characterising key alternative splicing events in Drosophila development

Christine A. Orengo, Jonathan G. Lees, C. Orengo, 2015, BMC Genomics.

FUN-L: gene prioritization for RNAi screens

Alfonso Valencia, Christine A. Orengo, Jonathan G. Lees, 2015, Bioinform..

Systems biology approaches to finding novel pain mediators

Jonathan Lees, Christine Orengo, Tobias Hildebrandt, 2013, Wiley interdisciplinary reviews. Systems biology and medicine.

CATH: comprehensive structural and functional annotations for genome sequences

David A. Lee, Ian Sillitoe, Janet M. Thornton, 2014, Nucleic Acids Res..

Gene3D: Extensive prediction of globular domains in proteins

David A. Lee, Ian Sillitoe, Christine A. Orengo, 2017, Nucleic Acids Res..

CATH: an expanded resource to predict protein function through structure and sequence

David A. Lee, Ian Sillitoe, Christine A. Orengo, 2016, Nucleic Acids Res..

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

Tapio Salakoski, Feng Zhang, Paolo Fontana, 2019, Genome Biology.

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

Tapio Salakoski, Paolo Fontana, Silvio C. E. Tosatto, 2016, Genome Biology.

Biological impact of mutually exclusive exon switching

Su Datt Lam, Jonathan G. Lees, C. Orengo, 2021, PLoS Comput. Biol..

CATH FunFHMMer web server: protein functional annotations using functional family assignments

David A. Lee, Ian Sillitoe, Christine A. Orengo, 2015, Nucleic Acids Res..

Gene3D: a domain-based resource for comparative genomics, functional annotation and protein network analysis

Ian Sillitoe, Christine A. Orengo, Jonathan G. Lees, 2011, Nucleic Acids Res..

Calibration and Standardisation of Synchrotron Radiation Circular Dichroism and Conventional Circular Dichroism Spectrophotometers

Robert W. Janes, Jonathan G. Lees, Frank Wien, 2003 .

Genome-wide RNA-Sequencing analysis identifies a distinct fibrosis gene signature in the conjunctiva after glaucoma surgery

Jonathan G. Lees, C. Orengo, J. Lees, 2017, Scientific Reports.

Dynamic changes in the brain protein interaction network correlates with progression of Aβ42 pathology in Drosophila

Jonathan G. Lees, Harry M. Scholes, C. Orengo, 2018, Scientific Reports.

Tracking dynamic changes in Alzheimer’s disease brain proteome reveals ageing-independent damage in Drosophila

Jonathan G. Lees, Harry M. Scholes, C. Orengo, 2018, bioRxiv.

The Pain in Neuropathy Study (PiNS): a cross-sectional observational study determining the somatosensory phenotype of painful and painless diabetic neuropathy

Jonathan G. Lees, Andreas C. Themistocleous, C. Orengo, 2016, Pain.

Insertions in the SARS-CoV-2 Spike N-Terminal Domain May Aid COVID-19 Transmission

Su Datt Lam, C. Orengo, J. Lees, 2021, bioRxiv.

CATH: expanding the horizons of structure-based functional annotations for genome sequences

Ian Sillitoe, Janet M. Thornton, Christine A. Orengo, 2018, Nucleic Acids Res..

Gene3D: Extensive prediction of globular domains in proteins

David A. Lee, Ian Sillitoe, Christine A. Orengo, 2017, Nucleic Acids Res..

Comparison of Drosophila melanogaster Embryo and Adult Proteome by SWATH-MS Reveals Differential Regulation of Protein Synthesis, Degradation Machinery, and Metabolism Modules.

C. Orengo, S. Russell, J. Lees, 2019, Journal of proteome research.

Broad functional profiling of fission yeast proteins using phenomics and machine learning

Harry M. Scholes, C. Orengo, J. Bähler, 2023, bioRxiv.

Functional classification of CATH superfamilies: a domain-based approach for protein function annotation

David A. Lee, Ian Sillitoe, Christine A. Orengo, 2015, Bioinform..

New functional families (FunFams) in CATH to improve the mapping of conserved functional sites to 3D structures

David A. Lee, Ian Sillitoe, Janet M. Thornton, 2012, Nucleic Acids Res..

Structural and Functional View of Polypharmacology

John P. Overington, Jonathan G. Lees, Christine Orengo, 2016, bioRxiv.

VUV irradiation effects on proteins in high-flux synchrotron radiation circular dichroism spectroscopy.

A J Miles, J. Lees, S. Hoffmann, 2005, Journal of synchrotron radiation.

Gene3D: comprehensive structural and functional annotation of genomes

Nigel J. Martin, Christine A. Orengo, Jonathan G. Lees, 2007, Nucleic Acids Res..

Biomedical applications of synchrotron radiation circular dichroism spectroscopy: identification of mutant proteins associated with disease and development of a reference database for fold motifs.

Frank Wien, Jonathan G Lees, Christine Slingsby, 2004, Faraday discussions.

Tracing Evolution Through Protein Structures: Nature Captured in a Few Thousand Folds

Jonathan G. Lees, C. Orengo, J. Lees, 2021, Frontiers in Molecular Biosciences.

CATH: comprehensive structural and functional annotations for genome sequences

David A. Lee, Tony E. Lewis, Alison L. Cuff, 2014, Nucleic Acids Research.

Gene3D: expanding the utility of domain assignments

David A. Lee, Ian Sillitoe, Christine A. Orengo, 2015, Nucleic Acids Res..

Gene3D: Multi-domain annotations for protein sequence and comparative genome analysis

David A. Lee, Ian Sillitoe, Christine A. Orengo, 2013, Nucleic Acids Res..

SARS-CoV-2 spike protein predicted to form complexes with host receptor protein orthologues from a broad range of mammals

Su Datt Lam, Jonathan G. Lees, Harry M. Scholes, 2020, Scientific Reports.

cath-resolve-hits: a new tool that resolves domain matches suspiciously quickly

Ian Sillitoe, Tony E. Lewis, Jonathan G. Lees, 2018, Bioinform..

Broad functional profiling of fission yeast proteins using phenomics and machine learning

Jonathan G. Lees, Harry M. Scholes, Shaimaa A. Hassan, 2023, bioRxiv.

Systems biology approaches to finding novel pain mediators

Jonathan G. Lees, C. Orengo, J. Lees, 2013, Wiley interdisciplinary reviews. Systems biology and medicine.

cath-resolve-hits: a new tool that resolves domain matches suspiciously quickly

Tony E. Lewis, J. Lees, I. Sillitoe, 2018, Bioinform..

Functional innovation from changes in protein domains and their combinations.

C. Orengo, J. Lees, I. Sillitoe, 2016, Current opinion in structural biology.

CATH: comprehensive structural and functional annotations for genome sequences

David A. Lee, Tony E. Lewis, Jonathan G. Lees, 2014, Nucleic Acids Res..