Automatic Selection of Molecular Descriptors using Random Forest: Application to Drug Discovery

Analysis of Receptor-Type Protein Tyrosine Phosphatase Extracellular Regions with Insights from AlphaFold
El Badaoui, L. and Barr, A.J. 2024. Analysis of Receptor-Type Protein Tyrosine Phosphatase Extracellular Regions with Insights from AlphaFold. International Journal of Molecular Sciences. 25 (2) e12507. https://doi.org/10.3390/ijms25020820

A Comprehensive Study on Pain Assessment from Multimodal Sensor Data
Benavent-Lledo, M., Mulero-Pérez, David, Ortiz-Perez, David, Rodriguez-Juan, J., Berenguer-Agullo, Adrian, Psarrou, Alexandra and Garcia-Rodriguez, J. 2023. A Comprehensive Study on Pain Assessment from Multimodal Sensor Data. Sensors. 23 (24) 9675. https://doi.org/10.3390/s23249675

Preprint: Analysis of Receptor-type Protein Tyrosine Phosphatase Extracellular Regions with Insights from AlphaFold
El Badaoui, L. and Barr, A.J. 2023. Preprint: Analysis of Receptor-type Protein Tyrosine Phosphatase Extracellular Regions with Insights from AlphaFold. Preprints.org. https://doi.org/10.20944/preprints202311.1503.v1

Heparan sulfates are critical regulators of the inhibitory megakaryocyte-platelet receptor G6b-B
Vögtle, T., Sharma, S., Mori, J., Nagy, Z., Semeniak, D., Scandola, C., Geer, M., Smith, C., Lane, J., Pollack, S., Lassila, R., Jouppila, A., Barr, A.J., Ogg, D., Howard, T., McMiken, H., Warwicker, J., Geh, C., Rowlinson, R., Abbott, W., Eckly, A., Schulze, H., Wright, G., Mazharian, A., Fütterer, K., Rajesh, S., Douglas, M. and Senis, Y. 2019. Heparan sulfates are critical regulators of the inhibitory megakaryocyte-platelet receptor G6b-B. eLife. 8 e46840. https://doi.org/10.7554/eLife.46840

JoVE Methods Collection Highlights: Protein-Protein Interactions
Barr, A.J. and Overduin, M. 2019. JoVE Methods Collection Highlights: Protein-Protein Interactions. Journal of Visualized Experiments. 148, p. e59816 e59816. https://doi.org/10.3791/59816

Brain-Inspired Intelligent Systems for Daily Assistance
Angelopoulou, A., Garcia-Rodriguez, J., Kapetanios, D.E., Roth, P.M. and Revett, K. 2019. Brain-Inspired Intelligent Systems for Daily Assistance. Computational Intelligence and Neuroscience. 2019 7597839. https://doi.org/10.1155/2019/7597839

Evaluation of different chrominance models in the detection and reconstruction of faces and hands using the growing neural gas network
Angelopoulou, A., Garcia-Rodriguez, J., Orts Escolano, S., Kapetanios, D.E., Liang, X., Woll, B. and Psarrou, A. 2019. Evaluation of different chrominance models in the detection and reconstruction of faces and hands using the growing neural gas network. Pattern Analysis and Applications. 22 (4), p. 1667–1685. https://doi.org/10.1007/s10044-019-00819-x

The biochemical basis of disease
Barr, A.J. 2018. The biochemical basis of disease. Essays in Biochemistry. 62 (5), pp. 619-642 https://doi.org/10.1042/EBC20170054. https://doi.org/10.1042/EBC20170054

Congenital macrothrombocytopenia with focal myelofibrosis due to mutations in human G6b-B is rescued in humanized mice
Hofmann, I., Geer, M.J., Vögtle, T., Crispin, A., Campagna, D.R., Barr, A.J., Calicchio, M.L., Heising, S., van Geffen, J.P., Kuijpers, M.J.E., Heemskerk, J.W.M., Eble, J.A., Schmitz-Abe, K., Obeng, E.A., Douglas, M., Freson, K., Pondarré, C., Favier, R., Jarvis, G.E., Markianos, K., Turro, E., Ouwehand, W.H., Mazharian, A., Fleming, M.D. and Senis, Y. 2018. Congenital macrothrombocytopenia with focal myelofibrosis due to mutations in human G6b-B is rescued in humanized mice. Blood. 132, pp. 1399-1412. https://doi.org/10.1182/blood-2017-08-802769

Targeting Receptor-Type Protein Tyrosine Phosphatases with Biotherapeutics: Is Outside-in Better than Inside-Out?
Senis, Y. A. and Barr, A.J. 2018. Targeting Receptor-Type Protein Tyrosine Phosphatases with Biotherapeutics: Is Outside-in Better than Inside-Out? Molecules. 23 (3) 569. https://doi.org/10.3390/molecules23030569

Fast 2D/3D object representation with growing neural gas
Angelopoulou, A., Garcia-Rodriguez, J., Orts Escolano, S., Gupta, G. and Psarrou, A. 2018. Fast 2D/3D object representation with growing neural gas. Neural Computing and Applications. 29 (10), pp. 903-919. https://doi.org/10.1007/s00521-016-2579-y

Defining the molecular basis of interaction between R3 receptor-type protein tyrosine phosphatases and VE-cadherin
Dorofejeva, O. and Barr, A.J. 2017. Defining the molecular basis of interaction between R3 receptor-type protein tyrosine phosphatases and VE-cadherin. PLoS ONE. 12 (9) e0184574. https://doi.org/10.1371/journal.pone.0184574

Performance Evaluation of a Statistical and a Neural Network Model for Nonrigid Shape-Based Registration
Angelopoulou, A., Psarrou, A., Garcia-Rodriguez, J. and Mentzelopoulos, M. 2016. Performance Evaluation of a Statistical and a Neural Network Model for Nonrigid Shape-Based Registration. Sixth International Conference on Image Processing Theory, Tools and Applications (IPTA'16). Finland 12 - 15 Dec 2016 IEEE . https://doi.org/10.1109/IPTA.2016.7820990

Real time motion estimation using a neural architecture implemented on GPUs
Garcia-Rodriguez, J., Orts Escolano, S., Angelopoulou, A., Psarrou, A., Azorin-Lopez, J. and Garcia-Chamizo, J.M. 2016. Real time motion estimation using a neural architecture implemented on GPUs. Journal of Real-Time Image Processing. 11 (4), pp. 731-749. https://doi.org/10.1007/s11554-014-0417-y

Editorial: Neural Processing Letters Special Issue on “Neural Networks for Vision and Robotics”
Garcia-Rodriguez, J., Psarrou, A., Lewis, A., Angelopoulou, A. and Cazorla, M. 2015. Editorial: Neural Processing Letters Special Issue on “Neural Networks for Vision and Robotics”. Neural Processing Letters. 43 (2), pp. 309-310. https://doi.org/10.1007/s11063-015-9435-4

3D reconstruction of medical images from slices automatically landmarked with growing neural models
Angelopoulou, A., Psarrou, A., Garcia-Rodriguez, J., Orts-Escolano, S., Azorin-Lopez, J. and Revett, K. 2015. 3D reconstruction of medical images from slices automatically landmarked with growing neural models. Neurocomputing. 150 (A), pp. 16-25. https://doi.org/10.1016/j.neucom.2014.03.078

Targeting protein tyrosine phosphatase SHP2 for therapeutic intervention
Butterworth, S., Overduin, M. and Barr, A.J. 2014. Targeting protein tyrosine phosphatase SHP2 for therapeutic intervention. Future Medicinal Chemistry. 6 (12), pp. 1423-1437. https://doi.org/10.4155/fmc.14.88

Functional Studies On Receptor-Type Protein Tyrosine Phosphatases Of The R3 Subgroup Using Bimolecular Fluorescence Complementation (BiFC) Assays
Dorofejeva, O., Dwek, M. and Barr, A.J. 2014. Functional Studies On Receptor-Type Protein Tyrosine Phosphatases Of The R3 Subgroup Using Bimolecular Fluorescence Complementation (BiFC) Assays . Pharmacology 2014. London 16 Dec 2014 British Pharmacological Society.

3D hand pose estimation with neural networks
Serra, J.A., Garcia-Rodriguez, J., Orts Escolano, S., Garcia-Chamizo, J.M., Angelopoulou, A., Psarrou, A., Mentzelopoulos, M., Montoyo-Bojo, J. and Domínguez, E. 2013. 3D hand pose estimation with neural networks. in: Advances in Computational Intelligence: 12th International Work-Conference on Artificial Neural Networks, IWANN 2013 Springer.

Football video annotation based on player motion recognition using enhanced entropy
Mentzelopoulos, M., Psarrou, A., Angelopoulou, A. and Garcia-Rodriguez, J. 2013. Football video annotation based on player motion recognition using enhanced entropy. in: Advances in Computational Intelligence: 12th International Work-Conference on Artificial Neural Networks, IWANN 2013 Springer.

Natural User Interfaces in Volume Visualisation using Microsoft Kinect
Angelopoulou, A., Garcia-Rodriguez, J., Psarrou, A., Mentzelopoulos, M., Reddy, B., Orts Escolano, S., Serra, J.A. and Lewis, A. 2013. Natural User Interfaces in Volume Visualisation using Microsoft Kinect. ICIAP 2013 International Workshops. Naples, Italy 09 Sep 2013 Springer. https://doi.org/10.1007/978-3-642-41190-8_2

Adaptive learning in motion analysis with self-organising maps
Angelopoulou, A., Garcia-Rodriguez, J., Psarrou, A., Gupta, G. and Mentzelopoulos, M. 2013. Adaptive learning in motion analysis with self-organising maps. International Joint Conference on Neural Networks (IJCNN). Dallas, TX 04 Aug 2013 IEEE . https://doi.org/10.1109/IJCNN.2013.6707135

A semi-parametric approach for football video annotation
Mentzelopoulos, M., Psarrou, A., Angelopoulou, A. and Garcia-Rodriguez, J. 2013. A semi-parametric approach for football video annotation. International Joint Conference on Neural Networks (IJCNN). Dallas, TX 04 Aug 2013 IEEE . https://doi.org/10.1109/IJCNN.2013.6706720

Active foreground region extraction and tracking for sports video annotation
Mentzelopoulos, M., Psarrou, A., Angelopoulou, A. and Garcia-Rodriguez, J. 2013. Active foreground region extraction and tracking for sports video annotation. Neural Processing Letters. 37 (1), pp. 33-46. https://doi.org/10.1007/s11063-012-9267-4

Structures of ABCB10, a human ATP-binding cassette transporter in apo- and nucleotide-bound states
Shintre, C.A., Pike, A.C.W., Li, Q., Kim, J.I., Barr, A.J., Goubin, S., Shrestha, L., Yang, J., Berridge, G., Ross, J., Stansfeld, P.J., Sansom, M.S.P., Edwards, A.M., Bountra, C., Marsden, B., von Delft, F., Bullock, A.N., Gileadi, O., Burgess-Brown, N.A. and Carpenter, E.P. 2013. Structures of ABCB10, a human ATP-binding cassette transporter in apo- and nucleotide-bound states. Proceedings of the National Academy of Sciences. 110 (24), pp. 9710-9715. https://doi.org/10.1073/pnas.1217042110

Crystal structures of ABL-related gene (ABL2) in complex with imatinib, tozasertib (VX-680), and a type I inhibitor of the triazole carbothioamide class
Salah, E., Ugochukwu, E., Barr, A.J., von Delft, F., Knapp, S. and Elkins, J.M. 2011. Crystal structures of ABL-related gene (ABL2) in complex with imatinib, tozasertib (VX-680), and a type I inhibitor of the triazole carbothioamide class. Journal of Medicinal Chemistry. 54 (7), pp. 2359-2367. https://doi.org/10.1021/jm101506n

Fast image representation with GPU-based growing neural gas
Garcia-Rodriguez, J., Angelopoulou, A., Morell, V., Orts Escolano, S., Psarrou, A. and Garcia-Chamizo, J.M. 2011. Fast image representation with GPU-based growing neural gas. in: Cabestany, J., Rojas, I. and Joya, G. (ed.) Advances in Computational Intelligence: 11th International Work-Conference on Artificial Neural Networks, IWANN 2011, Torremolinos-Málaga, Spain, June 8-10, 2011, Proceedings, Part II Springer.

Receptor tyrosine phosphatase PTPγ is a regulator of spinal cord neurogenesis
Hashemia, H., Hurley, M., Gibson, A., Panova, V., Tchetchelnitski, V., Barr, A.J. and Stoker, A.W. 2011. Receptor tyrosine phosphatase PTPγ is a regulator of spinal cord neurogenesis. Molecular and Cellular Neuroscience. 46 (2), pp. 469-482. https://doi.org/10.1016/j.mcn.2010.11.012

Hand gesture modelling and tracking using a self-organising network
Angelopoulou, A., Garcia-Rodriguez, J., Psarrou, A. and Gupta, G. 2010. Hand gesture modelling and tracking using a self-organising network. The 2010 International Joint Conference on Neural Networks (IJCNN) . Barcelona 18 Jul 2010 IEEE . https://doi.org/10.1109/IJCNN.2010.5596288

CD148 enhances platelet responsiveness to collagen by maintaining a pool of active Src family kinases
Ellison, S., Mori, J., Barr, A.J. and Senis, Y.A. 2010. CD148 enhances platelet responsiveness to collagen by maintaining a pool of active Src family kinases. Journal of Thrombosis and Haemostasis. 8 (7), pp. 1575-1583. https://doi.org/10.1111/j.1538-7836.2010.03865.x

Protein tyrosine phosphatases as drug targets: strategies and challenges of inhibitor development
Barr, A.J. 2010. Protein tyrosine phosphatases as drug targets: strategies and challenges of inhibitor development. Future Medicinal Chemistry. 2 (10), pp. 1563-1576. https://doi.org/10.4155/fmc.10.241

HD-PTP is a catalytically inactive tyrosine phosphatase due to a conserved divergence in its phosphatase domain
Gingras, M.C., Zhang, Y.L., Kharitidi, D., Barr, A.J., Knapp, S., Tremblay, M.L. and Pause, A. 2009. HD-PTP is a catalytically inactive tyrosine phosphatase due to a conserved divergence in its phosphatase domain. PLoS ONE. 4 (4) e5105. https://doi.org/10.1371/journal.pone.0005105

Large scale structural analysis of protein tyrosine phosphatases
Barr, A.J. and Knapp, S. 2009. Large scale structural analysis of protein tyrosine phosphatases. in: Bradshaw, R. and Dennis, E. (ed.) Handbook of cell signaling (2nd edition) San Diego, CA Elsevier. pp. 871-876

Large-scale structural analysis of the classical human protein tyrosine phosphatome
Barr, A.J., Ugochukwu, E., Lee, W.H., King, O.N.F., Filippakopoulos, P., Alfano, I., Savitsky, P., Burgess-Brown, N.A., Muller, S. and Knapp, S. 2009. Large-scale structural analysis of the classical human protein tyrosine phosphatome. Cell. 136 (2), pp. 352-363. https://doi.org/10.1016/j.cell.2008.11.038

Sequence-specific 1H, 13C and 15N backbone resonance assignments of the 34 kDa catalytic domain of human PTPN7
Jeeves, M., McClelland, D.M., Barr, A.J. and Overduin, M. 2008. Sequence-specific 1H, 13C and 15N backbone resonance assignments of the 34 kDa catalytic domain of human PTPN7. Biomolecular NMR Assignments. 2 (2), pp. 101-103. https://doi.org/10.1007/s12104-008-9095-7

Crystal structures and inhibitor identification for PTPN5, PTPRR and PTPN7: a family of human MAPK-specific protein tyrosine phosphatases
Eswaran, J., von Kries, J.P., Marsden, B., Longman, E., Debreczeni, J.E., Ugochukwu, E., Turnbull, A., Lee, W.H., Knapp, S. and Barr, A.J. 2006. Crystal structures and inhibitor identification for PTPN5, PTPRR and PTPN7: a family of human MAPK-specific protein tyrosine phosphatases. Biochemical Journal. 395 (3), pp. 483-491. https://doi.org/10.1042/BJ20051931

The crystal structure of human receptor protein tyrosine phosphatase κ phosphatase domain 1
Eswaran, J., Debreczeni, J.E., Longman, E., Barr, A.J. and Knapp, S. 2006. The crystal structure of human receptor protein tyrosine phosphatase κ phosphatase domain 1. Protein Science. 15 (6), pp. 1500-1505. https://doi.org/10.1110/ps.062128706

Crystal structure of human protein tyrosine phosphatase 14 (PTPN14) at 1.65-A resolution
Barr, A.J., Debreczeni, J.E., Eswaran, J. and Knapp, S. 2006. Crystal structure of human protein tyrosine phosphatase 14 (PTPN14) at 1.65-A resolution. Proteins. 63 (4), pp. 1132-1136. https://doi.org/10.1002/prot.20958

MAPK-specific tyrosine phosphatases: new targets for drug discovery?
Barr, A.J. and Knapp, S. 2006. MAPK-specific tyrosine phosphatases: new targets for drug discovery? Trends in Pharmacological Sciences. 27 (10), pp. 525-530. https://doi.org/10.1016/j.tips.2006.08.005

Phospholipase C-β 2 interacts with mitogen-activated protein kinase kinase 3
Barr, A.J., Marjoram, R.J., Xu, J. and Snyderman, R. 2002. Phospholipase C-β 2 interacts with mitogen-activated protein kinase kinase 3. Biochemical and Biophysical Research Communications. 293 (1), pp. 647-652. https://doi.org/10.1016/S0006-291X(02)00259-0

RGS4 inhibits platelet-activating factor receptor phosphorylation and cellular responses
Richardson, R.M., Marjoram, R.J., Barr, A.J. and Snyderman, R. 2001. RGS4 inhibits platelet-activating factor receptor phosphorylation and cellular responses. Biochemistry. 40 (12), pp. 3583-3588. https://doi.org/10.1021/bi0019242

Insect Cell systems to Study the Communication of Mammalian Receptors and G proteins
Windh, R., Barr, A.J. and Manning, D.R. 2000. Insect Cell systems to Study the Communication of Mammalian Receptors and G proteins. in: Kenakin, T. and Angus, J.A. (ed.) The Pharmacology of Functional, Biochemical, and Recombinant Receptor Systems Berlin Heidelberg Springer. pp. 335-362

Function and regulation of chemoattractant receptors
Haribabu, B., Richardson, R.M., Verghese, M.W., Barr, A.J., Zhelev, D.V. and Snyderman, R. 2000. Function and regulation of chemoattractant receptors. Immunologic Research. 22 (2-3), pp. 271-279. https://doi.org/10.1385/IR:22:2-3:271

Identification of a region at the N-terminus of phospholipase C-beta 3 that interacts with G protein beta gamma subunits
Barr, A.J., Ali, H., Haribabu, B., Snyderman, R. and Smrcka, A.V. 2000. Identification of a region at the N-terminus of phospholipase C-beta 3 that interacts with G protein beta gamma subunits. Biochemistry. 39 (7), pp. 1800-1806. https://doi.org/10.1021/bi992021f

Agonist-promoted GTP[S35]-binding as a probe for receptor.G protein communication in Sf9 cells
Barr, A.J. and Manning, D.R. 1999. Agonist-promoted GTP[S35]-binding as a probe for receptor.G protein communication in Sf9 cells. in: Manning, D.R. (ed.) G proteins: techniques of analysis Boca Raton, FL CRC Press. pp. 227-246

Differential coupling of the sphingosine 1-phosphate receptors Edg-1, Edg-3, and H218/Edg-5 to the Gi, Gq, and G12 families of heterotrimeric G proteins
Windh, R., Lee, M.J., Hla, T., An, S., Barr, A.J. and Manning, D.R. 1999. Differential coupling of the sphingosine 1-phosphate receptors Edg-1, Edg-3, and H218/Edg-5 to the Gi, Gq, and G12 families of heterotrimeric G proteins. Journal of Biological Chemistry. 274 (39), pp. 27351-27358. https://doi.org/10.1074/jbc.274.39.27351

Differential regulation of formyl peptide and platelet-activating factor receptors: role of phospholipase Cbeta3 phosphorylation by protein kinase A
Ali, H., Sozzani, S., Fisher, I., Barr, A.J., Richardson, R.M., Haribabu, B. and Snyderman, R. 1998. Differential regulation of formyl peptide and platelet-activating factor receptors: role of phospholipase Cbeta3 phosphorylation by protein kinase A. Journal of Biological Chemistry. 273 (18), pp. 11012-11016. https://doi.org/10.1074/jbc.273.18.11012

Reconstitution of receptors and GTP-binding regulatory proteins (G Proteins) in Sf9 Cells: a direct evaluation of selectivity in receptor.G protein coupling
Barr, A.J., Brass, L.F. and Manning, D.R. 1997. Reconstitution of receptors and GTP-binding regulatory proteins (G Proteins) in Sf9 Cells: a direct evaluation of selectivity in receptor.G protein coupling. Journal of Biological Chemistry. 272 (4), pp. 2223-2229. https://doi.org/10.1074/jbc.272.4.2223

Agonist-independent activation of Gz by the 5-hydroxytryptamine1A receptor co-expressed in spodoptera frugiperda cells: distinguishing inverse agonists from neutral antagonists
Barr, A.J. and Manning, D.R. 1997. Agonist-independent activation of Gz by the 5-hydroxytryptamine1A receptor co-expressed in spodoptera frugiperda cells: distinguishing inverse agonists from neutral antagonists. Journal of Biological Chemistry. 272 (52), pp. 32979-32987. https://doi.org/10.1074/jbc.272.52.32979

Protein kinase C mediates delayed inhibitory feedback regulation of human neurokinin type 1 receptor activation of phospholipase C in UC11 astrocytoma cells
Barr, A.J. and Watson, S.P. 1994. Protein kinase C mediates delayed inhibitory feedback regulation of human neurokinin type 1 receptor activation of phospholipase C in UC11 astrocytoma cells. Molecular Pharmacology. 46 (2), pp. 266-273.

Non-peptide antagonists, CP-96,345 and RP 67580, distinguish species variants in tachykinin NK1 receptors
Barr, A.J. and Watson, S.P. 1993. Non-peptide antagonists, CP-96,345 and RP 67580, distinguish species variants in tachykinin NK1 receptors. British Journal of Pharmacology. 108 (1), pp. 223-227. https://doi.org/10.1111/j.1476-5381.1993.tb13466.x

The presence of NK3 tachykinin receptors on rat uterus
Barr, A.J., Watson, S.P., Bernal, A.L. and Nimmo, A.J. 1991. The presence of NK3 tachykinin receptors on rat uterus. European Journal of Pharmacology. 203 (2), pp. 287-290. https://doi.org/10.1016/0014-2999(91)90726-7