Research Topics
| Kuang LinSummaryAffiliation: National Institute for Medical Research Country: UK Publications
| Collaborators |
Detail Information
Publications
Testing homology with Contact Accepted mutatiOn (CAO): a contact-based Markov model of protein evolutionKuang Lin
Division of Mathematical Biology, National Institute for Medical Research, Mill Hill, NW7 1AA, London, UK
Comput Biol Chem 27:93-102. 2003..CAO yields scores that reflect coherently the structural quality of sequence alignments, which has implications particularly for homology modelling and threading techniques...- A simple and fast secondary structure prediction method using hidden neural networksKuang Lin
Division of Mathematical Biology, The National Institute for Medical Research The Ridgeway, Mill Hill, London NW7 1AA, UK
Bioinformatics 21:152-9. 2005.... - Threading using neural nEtwork (TUNE): the measure of protein sequence-structure compatibilityKuang Lin
Division of Mathematical Biology, National Institute for Medical Research, The Ridgeway, Mill Hill NW7 1AA, UK
Bioinformatics 18:1350-7. 2002..AVAILABILITY: The C++ source code of our neural network model is available at http://mathbio.nimr.mrc.ac.uk/~kxlin... - Dynamic domain threadingWilliam R Taylor
Division of Mathematical Biology, National Institute for Medical Research, The Ridgeway, Mill Hill, London NW7 1AA, United Kingdom
Proteins 64:601-14. 2006..The method is also compared to an earlier retroviral capsid modeling problem for which the X-ray structure is now known. Some potential extensions of the approach to more distant modeling problems are discussed... - Prediction of protein structure from ideal formsWilliam R Taylor
Division of Mathematical Biology, National Institute for Medical Research, The Ridgeway, Mill Hill, London NW7 1AA, United Kingdom
Proteins 70:1610-9. 2008..Our method is unique in using a database of ideal models based on general packing rules that, in spirit, is closer to an ab initio approach... - A knot or not a knot? SETting the record 'straight' on proteinsWilliam R Taylor
Division of Mathematical Biology, National Institute for Medical Research, The Ridgeway, Mill Hill, London NW7 1AA, UK
Comput Biol Chem 27:11-5. 2003..The term pseudo-knot was introduced (from the RNA field) to distinguish hydrogen-bonded 'knots'... - Protein knots: A tangled problemWilliam R Taylor
Division of Mathematical Biology, National Institute for Medical Research, The Ridgeway, Mill Hill, London NW7 1AA, UK
Nature 421:25. 2003 - Amino acid encoding schemes from protein structure alignments: multi-dimensional vectors to describe residue typesKuang Lin
Division of Mathematical Biology, National Institute for Medical Research, The Ridgeway, Mill Hill, NW, 7 1AA, UK
J Theor Biol 216:361-65. 2002..We expect it to be useful for visual inspection and manual editing of protein multiple sequence alignments... - Scooby-domain: prediction of globular domains in protein sequenceRichard A George
Inpharmatica Ltd, 60 Charlotte Street, London W1T 2NU, UK
Nucleic Acids Res 33:W160-3. 2005..It may be used to visualize local properties within a protein sequence, such as average hydrophobicity, secondary structure propensity and domain boundaries, as well as being a method for fast domain assignment of large sequence sets... - Identifying foldable regions in protein sequence from the hydrophobic signalChi N I Pang
Structural and Computational Biology Program, Victor Chang Cardiac Research Institute, Sydney, Australia
Nucleic Acids Res 36:578-88. 2008..The method does not rely on homology searches and, therefore, can identify previously unknown domains... - Contact-based sequence alignmentJens Kleinjung
Bioinformatics Unit, Faculty of Sciences and Faculty of Earth and Life Sciences, Vrije Universiteit, De Boelelaan 1081a, 1081HV Amsterdam, The Netherlands
Nucleic Acids Res 32:2464-73. 2004..This has allowed us to annotate eight putative Drosophila IGF sequences. Contact-based sequence alignment should therefore prove useful in comparative modelling and fold recognition...