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All fields Title Creator / Publisher Keyword Year AND OR AND NOT All fields Title Creator / Publisher Keyword Year AND OR AND NOT All fields Title Creator / Publisher Keyword Year AND OR AND NOT All fields Title Creator / Publisher Keyword Year AND OR AND NOT All fields Title Creator / Publisher Keyword Year Sort by creator [A → Z]' creator [Z → A]' publishing year ↑ (asc)' publishing year ↓ (desc)' title [A → Z]' title [Z → A]' Simple Search Hits 1 – 3 of 3 1 Computational linguistics: A new tool for exploring biopolymer structures and statistical mechanics Dill, Ken A; Lucas, Adam; Hockenmaier, Julia; Huang, Liang; Chiang, David; Joshi, Aravind K. In: Dill, Ken A; Lucas, Adam; Hockenmaier, Julia; Huang, Liang; Chiang, David; & Joshi, Aravind K.(2007). Computational linguistics: A new tool for exploring biopolymer structures and statistical mechanics. Polymer, 48, 4289 - 4300. doi:10.1016/j.polymer.2007.05.018. UC San Francisco: Retrieved from: http://www.escholarship.org/uc/item/235458px (2007) Abstract: Unlike homopolymers, biopolymers are composed of specific sequences of different types of monomers. In proteins and RNA molecules, one-dimensional sequence information encodes a three-dimensional fold, leading to a corresponding molecular function. Such folded structures are not treated adequately through traditional methods of polymer statistical mechanics. A promising new way to solve problems of the statistical mechanics of biomolecules comes from computational linguistics, the field that uses computers to parse and understand the sentences in natural languages. Here, we give two examples. First, we show that a dynamic programming method of computational linguistics gives a fast way to search protein models for native structures. Interestingly, the computational search process closely resembles the physical folding process. Second, linguistics-based dynamic programming methods are also useful for computing partition functions and densities of states for some foldable biopolymers e helix-bundle proteins are reviewed here. In these ways, computational linguistics is helping to solve problems of the searching and counting of biopolymer conformations. Keyword: Biopolymers; Lattice models; Proteins URL: http://www.escholarship.org/uc/item/235458px BASE Hide details 2 Detecting Compositionality of Verb-Object Combinations using Selectional Preferences Venkatapathy, Sriram; McCarthy, Diana; Joshi, Aravind K. - : The Association for Computational Linguistics, 2007 BASE Show details 3 The Penn Discourse Treebank 2.0 Annotation Manual Prasad, Rashmi; Miltsakaki, Eleni; Dinesh, Nikhil... In: IRCS Technical Reports Series (2007) BASE Show details

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