Publications
2010
Hamer R, Chen PY, Armitage JP, Reinert G, Deane CM.
Deciphering chemotaxis pathways using cross species comparisons.
BMC Syst Biol. 2010 Jan 11;4(1):3.
PMID: 20064255
2009
Yoonjoo Choi, Charlotte M. Deane
FREAD revisited: Accurate loop structure prediction using a database search algorithm
PROTEINS :Structure Function and Bioinformatics (2009) [Epub ahead of print]
http://dx.doi.org/10.1002/prot.22658
Rhodri Saunders, Charlotte M. Deane
Protein structure prediction begins well but ends badly
PROTEINS : Structure, Function and Bioinformatics (2009) [Epub ahead of print]
http://dx.doi.org/10.1002/prot.22646
Ali W, Deane CM
Functionally guided alignment of protein interaction networks for module detection.
Bioinformatics. 2009 Oct 1. [Epub ahead of print]
Anna C. F. Lewis, Ramazan Saeed and Charlotte M. Deane
Predicting protein-protein interactions in the context of protein evolution
Mol. BioSyst., 2009, DOI:10.1039/b916371a.
Prerna C. Patel, Katherine H. Fisher, Eric C.C. Yang, Charlotte M. Deane, and Rene E. Harrison
Proteomic analysis of microtubule associated proteins during macrophage activation
Molecular and Cellular Proteomics published August 2, 2009, 10.1074/mcp.M900190-MCP200
Heytens E, Parrington J, Coward K, Young C, Lambrecht S, Yoon SY, Fissore RA, Hamer R, Deane CM, Ruas M, Grasa P, Soleimani R, Cuvelier CA, Gerris J, Dhont M, Deforce D, Leybaert L, De Sutter P.
Reduced amounts and abnormal forms of phospholipase C zeta (PLC{zeta}) in spermatozoa from infertile men.
Hum Reprod. 2009 Oct;24(10):2417-28.
PMID: 19584136
Kelm S, Shi J, Deane CM
iMembrane: Homology-Based Membrane-Insertion of Proteins
Bioinformatics. 2009; [Epub ahead of print]
2008
Mann M, Maticzka D, Saunders R, Backofen R.
Classifying proteinlike sequences in arbitrary lattice protein models using LatPack
HFSP J. 2008 Dec;2(6):396-404. Epub 2008 Nov 26.
Chen P-Y, Deane CM, Reinert G
Predicting and Validating Protein Interactions Using Network Structure.
PLoS Comput Biol 4(7): (2008)
Najl V Valeyev, A Kristina Downing, John Sondek and Charlotte Deane
Electrostatic and Functional Analysis of the Seven-Bladed WD beta-propellers
Evolutionary Bioinformatics 2008:4
Julian R Hughes, Ana M Meireles, Katherine H Fisher, Angel Garcia, Philip R Antrobus, Alan Wainman, Nicole Zitzmann, Charlotte Deane, Hiroyuki Ohkura, James G Wakefield
A Microtubule Interactome: Complexes with Roles in Cell Cycle and Mitosis
PLoS Biology, Vol. 6, No. 4. (1 April 2008), e98.
2007
Saeed R, Deane C.
An assessment of the uses of homologous interactions.
Bioinformatics. 2007 Nov 27; [Epub ahead of print]
Deane CM, Dong M, Huard FP, Lance BK, Wood GR.
Cotranslational protein folding--fact or fiction?
Bioinformatics. 2007 Jul 1;23(13):i142-8.
Chen PY, Deane CM, Reinert G.
A statistical approach using network structure in the prediction of protein characteristics.
Bioinformatics. 2007 Sep 1;23(17):2314-21. Epub 2007 Jun 28.
Abeln S, Teubner C, Deane CM.
Using Phylogeny to Improve Genome-Wide Distant Homology Recognition.
PLoS Comput Biol. 2007 Jan 19;3(1):e3
2004-2006
Huard FP Deane CM. Wood GR
Modelling sequential protein folding under kinetic control.
Bioinformatics. 2006 Jul 15;22(14):e203-10.
Saeed R, Deane CM.
Protein protein interactions, evolutionary rate, abundance and age.
BMC Bioinformatics. 2006 Mar 13;7(1):128
Winstanley HF, Abeln S, Deane CM
How old is your fold?
Bioinformatics. 2005 Jun 1;21 Suppl 1:i449-i458
Sanne Abeln and Charlotte M. Deane
Fold Usage on Genomes and Protein Fold Evolution
Proteins. 2005 Sep 1;60(4):690-700.
Joanne M. O'Leary, John M. Hamilton, Charlotte M. Deane, Najl V. Valeyev, Linda J. Sandell, & A. Kristina Downing
Solution structure and dynamics of a prototypical chordin-like cysteine-rich repeat (VWC module) from collagen IIA
J. Biol Chem. 2004 Dec 17;279(51):53857-66.
2001-2003
Charlotte M. Deane, Lukasz Salwinski, Ioannis Xenarios and David Eisenberg
Protein interactions: Two methods for assessment of the reliability of high-throughput observations
Molecular and Cellular Proteomics (2002) 1:349-356 Joint first authors
Williams MG, Shirai H, Shi J, Nagendra HG, Mueller J, Mizuguchi K, Miguel RN, SC Innis CA, Deane CM, Chen L, Campillo N, Burke DF, Blundell TL, de Bakker PI.
Sequence-structure homology recognition by iterative alignment refinement and comparative modeling
Proteins (2001) 45 Suppl 5:92-7
Charlotte M. Deane Quentin Kaas and Tom L. Blundell
SCORE: Predicting the core of protein models
Bioinformatics (2001) 17(6):541-550
Sarah C. R. Lummis and Charlotte M. Deane
The role and predicted propensity of conserved proline residues in the 5-hydroxytrytamine receptor
J. Biol Chem. (2001) 12;276(41):37962-6.
David F. Burke and Charlotte M. Deane
Improved loop prediction from sequence alone
Protein Eng. (2001) 14(7):473-8
Charlotte M. Deane and Tom L. Blundell
CODA: A combined algorithm for predicting the structurally variable regions of protein models
Protein Sci. (2001) 10:599-612
1999-2000
David F. Burke, Charlotte M. Deane and Tom L. Blundell
Browsing the SLoop database of structurally classified protein loops connecting elements of protein secondary structure
Bioinformatics (2000) 16:513-519
Charlotte M. Deane and Tom L. Blundell
A novel exhaustive search algorithm for predicting the conformation of polypeptide segments in proteins
Proteins (2000) 40:135-144
Charlotte M. Deane Frank H. Allen, Robin Taylor and Tom L. Blundell
Carbonyl - carbonyl interactions stabilise the partially allowed conformations of asparagine and aspartic acid
Protein Eng. (1999) 12:1025-1028
David F. Burke*, Charlotte M. Deane*, Hampapathulu A. Nagarajaram*, Nuria Campillo, Mercedes Martin-Martinez, Joaquim Mendes, Franck Molina, Jeff Perry, B.V.B. Reddy, Claudio M. Soares, Robert E. Steward, Mark Williams, Maria Armenia Carrondo, Tom L. Blundell and Kenji Mizuguchi
An iterative structure-assisted approach to sequence alignment and comparative modelling
Proteins (1999) Suppl 3:55-60
*Joint first authors
1997-1998
Kenji Mizuguchi, Charlotte M. Deane, Tom L. Blundell, John P.Overington
HOMSTRAD: A database of protein structure alignments for homologous families
Protein Sci. (1998) 7:1-3
Kenji Mizuguchi, Charlotte M. Deane, Tom L. Blundell, Mark S. Johnson and John P. Overington
JOY: Protein sequence-structure representation analysis
Bioinformatics (1998) 14:617-623
R.Sowdhamini, David F. Burke, Charlotte M. Deane, Jing-fei Huang, Kenji Mizuguchi, Hampapathulu A. Nagarajaram, John P. Overington, N. Srinivasan, Robert E. Steward and Tom L. Blundell
Protein 3D structural databases: Domains, structurally aligned homologues and superfamilies
Acta Cryst. (1998). D54:1168 - 1177
Charlotte M. Deane Romano T. Kroemer, W. Graham Richards
A structural model of the human thrombopoietin receptor complex.
J. Mol. Graphics (1997) 15:170-178.
Book Chapters
Charlotte M. Deane and Tom L. Blundell
Protein comparative modeling and drug discovery in The practice of medicinal chemistry,
eds. CG Wermuth
Charlotte M. Deane and Tom L. Blundell
Examination of the less favoured regions of the Ramachandran plot in Perspectives in structural biology,
eds. Vijayan, M., Yathindra, N.and Kolaskar, A. S. (Indian Academy of Sciences, Hyderabad) (1999).
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