Contact information

Email	brian.marsden@kennedy.ox.ac.uk
Tel	+44 (0)1865 612658

My connections

Marsden Group | Research Informatics Research Group, Kennedy Institute
SGC Oxford’s Research Informatics Research group
Marsden Group | Research Informatics Research Group
ULTRA - DD Research Group

Brian Marsden

D.Phil.

Principal Investigator, Research Informatics Group

After completing a D.Phil. within the Iain Campbell lab at the University of Oxford, Brian was awarded a Wellcome Trust Prize Fellowship which he spent at the Abagyan lab at the Scripps Research Institute, La Jolla, USA, devising novel methods for proteins structure superimposition and also implementing high performance compute and storage clusters. He then worked as part of the Computational Chemistry group at BioFocus PLC before settling down at the SGC in Oxford where he continues to be responsible for all aspects of Informatics, IT and structural bioinformatics. He has a particular interest in the development of novel data capture and visualisation methods for structural and chemical biology data.

Since 2013, Brian has split his time with the Kennedy Institute where he and his team are responsible for the provision of IT capabilities as well as effective data management platforms to support the broad range of science within the Institute.

Partial-occupancy binders identified by the Pan-Dataset Density Analysis method offer new chemical opportunities and reveal cryptic binding sites.
Pearce NM. et al, (2017), Struct Dyn, 4
A multi-crystal method for extracting obscured crystallographic states from conventionally uninterpretable electron density.
Pearce NM. et al, (2017), Nat Commun, 8
WONKA and OOMMPPAA: analysis of protein-ligand interaction data to direct structure-based drug design.
Deane CM. et al, (2017), Acta Crystallogr D Struct Biol, 73, 279 - 285
The XChemExplorer graphical workflow tool for routine or large-scale protein-ligand structure determination.
Krojer T. et al, (2017), Acta Crystallogr D Struct Biol, 73, 267 - 278
A poised fragment library enables rapid synthetic expansion yielding the first reported inhibitors of PHIP(2), an atypical bromodomain
Cox OB. et al, (2016), CHEMICAL SCIENCE, 7, 2322 - 2330
WONKA: objective novel complex analysis for ensembles of protein-ligand structures
Bradley AR. et al, (2015), Journal of Computer-Aided Molecular Design, 29, 963 - 973
The promise and peril of chemical probes.
Arrowsmith CH. et al, (2015), Nat Chem Biol, 11, 536 - 541
Linking genotypes database with locus-specific database and genotype-phenotype correlation in phenylketonuria
Wettstein S. et al, (2015), European Journal of Human Genetics, 23, 302 - 309
Linking genotypes database with locus-specific database and genotype-phenotype correlation in phenylketonuria.
Wettstein S. et al, (2015), Eur J Hum Genet, 23, 302 - 309
OOMMPPAA: a tool to aid directed synthesis by the combined analysis of activity and structural data.
Bradley AR. et al, (2014), J Chem Inf Model, 54, 2636 - 2646
[1,2,4]triazolo[4,3-a]phthalazines: inhibitors of diverse bromodomains.
Fedorov O. et al, (2014), J Med Chem, 57, 462 - 476
The Humoral Immune Response to HCV: Understanding is Key to Vaccine Development.
Cashman SB. et al, (2014), Front Immunol, 5
Structural basis for Cul3 protein assembly with the BTB-Kelch family of E3 ubiquitin ligases.
Canning P. et al, (2013), J Biol Chem, 288
Crystal structures of malonyl-coenzyme A decarboxylase provide insights into its catalytic mechanism and disease-causing mutations.
Froese DS. et al, (2013), Structure, 21, 1182 - 1192
Structures of ABCB10, a human ATP-binding cassette transporter in apo- and nucleotide-bound states.
Shintre CA. et al, (2013), Proc Natl Acad Sci U S A, 110, 9710 - 9715
Structural basis for Cul3 protein assembly with the BTB-Kelch family of E3 ubiquitin ligases.
Canning P. et al, (2013), J Biol Chem, 288, 7803 - 7814
Identification of a chemical probe for bromo and extra C-terminal bromodomain inhibition through optimization of a fragment-derived hit.
Fish PV. et al, (2012), J Med Chem, 55, 9831 - 9837
ChromoHub: a data hub for navigators of chromatin-mediated signalling.
Liu L. et al, (2012), Bioinformatics, 28, 2205 - 2206
Plant growth regulator daminozide is a selective inhibitor of human KDM2/7 histone demethylases.
Rose NR. et al, (2012), J Med Chem, 55, 6639 - 6643
Developing chemical probes for the BET bromodomains
Hewings DS. et al, (2012), ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 243
3,5-Dimethylisoxazoles inhibit the bromodomain-histone protein-protein interaction
Hewings DS. et al, (2012), ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 243
Linking of 2-oxoglutarate and substrate binding sites enables potent and highly selective inhibition of JmjC histone demethylases.
Woon EC. et al, (2012), Angew Chem Int Ed Engl, 51, 1631 - 1634
Click JAHAs: Conformationally restricted ferrocene-based histone deacetylase inhibitors
Spencer J. et al, (2012), MedChemComm, 3, 61 - 64
Click JAHAs: conformationally restricted ferrocene-based histone deacetylase inhibitors
Spencer J. et al, (2012), MEDCHEMCOMM, 3, 61 - 64
Visualisation and efficient communication in structure-based lead discovery
Marsden BD. et al, (2011), 176 - 189
3,5-dimethylisoxazoles act as acetyl-lysine-mimetic bromodomain ligands.
Hewings DS. et al, (2011), J Med Chem, 54, 6761 - 6770
Interactive JIMD articles using the iSee concept: turning a new page on structural biology data.
Lee WH. et al, (2011), J Inherit Metab Dis, 34, 565 - 567
INTERACTIVE 3D VISUALISATIONS OF PROTEIN STRUCTURES TO AID THE STUDY OF INBORN ERRORS OF METABOLISM
Lee WH. et al, (2011), JOURNAL OF INHERITED METABOLIC DISEASE, 34, S240 - S240
Structural genomics of histone tail recognition.
Wang M. et al, (2010), Bioinformatics, 26, 2629 - 2630
High-throughput production of human proteins for crystallization: the SGC experience.
Savitsky P. et al, (2010), J Struct Biol, 172, 3 - 13
Structural comparison of human mammalian ste20-like kinases.
Record CJ. et al, (2010), PLoS One, 5
SGC--structural biology and human health: a new approach to publishing structural biology results.
Lee WH. et al, (2009), PLoS One, 4
A new method for publishing three-dimensional content.
Raush E. et al, (2009), PLoS One, 4
Structure-activity relationships of human AKR-type oxidoreductases involved in bile acid synthesis: AKR1D1 and AKR1C4.
Lee WH. et al, (2009), Mol Cell Endocrinol, 301, 199 - 204
The human short-chain dehydrogenase/reductase (SDR) superfamily: a bioinformatics summary.
Bray JE. et al, (2009), Chem Biol Interact, 178, 99 - 109
Doing more than just the structure-structural genomics in kinase drug discovery.
Marsden BD. and Knapp S., (2008), Curr Opin Chem Biol, 12, 40 - 45
A systematic interaction map of validated kinase inhibitors with Ser/Thr kinases.
Fedorov O. et al, (2007), Proc Natl Acad Sci U S A, 104, 20523 - 20528
The scientific impact of the Structural Genomics Consortium: a protein family and ligand-centered approach to medically-relevant human proteins.
Gileadi O. et al, (2007), J Struct Funct Genomics, 8, 107 - 119
Insights for the development of specific kinase inhibitors by targeted structural genomics.
Fedorov O. et al, (2007), Drug Discov Today, 12, 365 - 372
Chemical screening methods to identify ligands that promote protein stability, protein crystallization, and structure determination.
Vedadi M. et al, (2006), Proc Natl Acad Sci U S A, 103, 15835 - 15840
High-throughput structural characterisation of therapeutic protein targets
Marsden BD. et al, (2006), Expert Opinion on Drug Discovery, 1, 123 - 136
Gas phase characterization of the noncovalent quaternary structure of cholera toxin and the cholera toxin B subunit pentamer.
Williams JP. et al, (2006), Biophys J, 90, 3246 - 3254
Crystal structures and inhibitor identification for PTPN5, PTPRR and PTPN7: a family of human MAPK-specific protein tyrosine phosphatases.
Eswaran J. et al, (2006), Biochem J, 395, 483 - 491
Disseminating structural genomics data to the public: from a data dump to an animated story.
Abagyan R. et al, (2006), Trends Biochem Sci, 31, 76 - 78
SDR goes SGC: A structural genomics initiative
Oppermann U. et al, (2006), Enzymology and Molecular Biology of Carbonyl Metabolism 12, 12, 235 - 241
Structural basis of inhibitor specificity of the human protooncogene proviral insertion site in moloney murine leukemia virus (PIM-1) kinase.
Bullock AN. et al, (2005), J Med Chem, 48, 7604 - 7614
Enzymology and Molecular Biology of Carbonyl Metabolism
Marsden B. et al, (2005), Enzymology and Molecular Biology of Carbonyl Metabolism, 12
A novel allelic variant of the human TSG-6 gene encoding an amino acid difference in the CUB module. Chromosomal localization, frequency analysis, modeling, and expression.
Nentwich HA. et al, (2002), J Biol Chem, 277, 15354 - 15362
Visualisation and Efficient Communication in Structure-Based Lead Discovery
Marsden B. et al, In silico Lead Discovery

Key publications

OOMMPPAA: a tool to aid directed synthesis by the combined analysis of activity and structural data.
Bradley AR. et al, (2014), J Chem Inf Model, 54, 2636 - 2646
ChromoHub: a data hub for navigators of chromatin-mediated signalling.
Liu L. et al, (2012), Bioinformatics, 28, 2205 - 2206
A new method for publishing three-dimensional content.
Raush E. et al, (2009), PLoS One, 4
SGC--structural biology and human health: a new approach to publishing structural biology results.
Lee WH. et al, (2009), PLoS One, 4
Structural genomics of histone tail recognition.
Wang M. et al, (2010), Bioinformatics, 26, 2629 - 2630

Recent Publications

Partial-occupancy binders identified by the Pan-Dataset Density Analysis method offer new chemical opportunities and reveal cryptic binding sites.
Pearce NM. et al, (2017), Struct Dyn, 4
A multi-crystal method for extracting obscured crystallographic states from conventionally uninterpretable electron density.
Pearce NM. et al, (2017), Nat Commun, 8
WONKA and OOMMPPAA: analysis of protein-ligand interaction data to direct structure-based drug design.
Deane CM. et al, (2017), Acta Crystallogr D Struct Biol, 73, 279 - 285
The XChemExplorer graphical workflow tool for routine or large-scale protein-ligand structure determination.
Krojer T. et al, (2017), Acta Crystallogr D Struct Biol, 73, 267 - 278
A poised fragment library enables rapid synthetic expansion yielding the first reported inhibitors of PHIP(2), an atypical bromodomain
Cox OB. et al, (2016), CHEMICAL SCIENCE, 7, 2322 - 2330

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