caporaso's library [303 articles]

Recent papers added to caporaso's library.

	The Rough Guide to Climate Change 1 (Rough Guide Reference) [My Copy] (30 October 2006) by Robert Henson posted to no-tag by caporaso on 2007-04-27 13:45:58 as along with 1 group biomedical-nlp
	Lonesome George : The Life and Loves of a Conservation Icon [My Copy] (04 April 2006) by Henry Nicholls posted to conservation by caporaso on 2007-04-27 13:45:11 as along with 3 people and 2 groups dayjm cmm Fin FAB-lab biomedical-nlp
	A Quarter Century of UNIX (Addison-Wesley UNIX and Open Systems Series) [My Copy] (31 May 1994) by Peter H. Salus posted to cs unix by caporaso on 2007-04-18 01:12:09 as along with 1 group biomedical-nlp
	Automatic Extraction of Protein Point Mutations Using a Graph Bigram Association [My Copy] PLoS Computational Biology, Vol. 3, No. 2. (1 February 2007), e16. by Lawrence C. Lee, Florence Horn, Fred E. Cohen posted to mutation nlp by caporaso on 2007-04-17 17:36:43 as along with 2 people and 2 groups aalibes yas T_lab biomedical-nlp
	Text-mining and information-retrieval services for molecular biology. [My Copy] Genome Biol, Vol. 6, No. 7. (2005) by M. Krallinger, A. Valencia posted to bioinformatics nlp by caporaso on 2007-04-17 03:53:19 as along with 15 people and 6 groups Scis0000002 martingerner lmichan henk-cul vkwn A_Hoogendam fisherp irenas Enro carlblesius textoris yas shimah78us cjeans spinaltap526 dbk-lab Blog_and_Wiki_Research mgh-lcs hst-bmi T_lab biomedical-nlp
	Is cross-validation better than resubstitution for ranking genes? [My Copy] Bioinformatics, Vol. 20, No. 2. (22 January 2004), pp. 253-258. by Ulisses Braga-Neto, Ronaldo Hashimoto, Edward R. Dougherty, Danh V. Nguyen, Raymond J. Carroll posted to bioinformatics cross-validation by caporaso on 2007-03-30 15:10:25 as along with 2 people and 1 group chad_davis rdiaz biomedical-nlp
	Is cross-validation valid for small-sample microarray classification? [My Copy] Bioinformatics, Vol. 20, No. 3. (12 February 2004), pp. 374-380. by Ulisses M. Braga-Neto, Edward R. Dougherty posted to bioinformatics cross-validation by caporaso on 2007-03-30 15:08:04 as along with 6 people and 1 group gabriprat jcanulre rdiaz chad_davis sdvillal sampath biomedical-nlp
	Bolstered Error Estimation [My Copy] by Ulisses B. Neto, Edward Dougherty posted to cross-validation machine-learning by caporaso on 2007-03-30 14:53:27 as along with 1 group biomedical-nlp
	No Unbiased Estimator of the Variance of K-Fold Cross-Validation [My Copy] J. Mach. Learn. Res., Vol. 5 (2004), pp. 1089-1105. by Yoshua Bengio, Yves Grandvalet posted to cross-validation machine-learning by caporaso on 2007-03-27 23:10:46 as along with 1 group biomedical-nlp
	Inference for the Generalization Error [My Copy] Mach. Learn., Vol. 52, No. 3. (September 2003), pp. 239-281. by Claude Nadeau, Yoshua Bengio posted to cross-validation machine-learning by caporaso on 2007-03-27 23:09:40 as along with 4 people and 1 group jread82 josrod jmetzen sdvillal biomedical-nlp
	Inference for the generalization error [My Copy] (2000) by C. Nadeau, Y. Bengio posted to cross-validation machine-learning by caporaso on 2007-03-27 23:08:52 as along with 2 people and 1 group davidr gyuli biomedical-nlp
	The Estimation of Prediction Error: Covariance Penalties and Cross-Validation [My Copy] Journal of the American Statistical Association, Vol. 99, No. 467. (September 2004), pp. 619-632. by Bradley Efron posted to cross-validation machine-learning by caporaso on 2007-03-27 23:07:28 as along with 2 groups biomedical-nlp UCSD_Economics
	No unbiased estimator of the variance of K-fold cross-validation [My Copy] (2003) by Y. Bengio, Y. Grandvalet posted to cross-validation machine-learning by caporaso on 2007-03-27 23:02:09 as along with 1 group biomedical-nlp
	Cross-validation and the bootstrap: Estimating the error rate of a prediction rule [My Copy] (1995) by B. Efron, R. Tibshirani posted to cross-validation machine-learning by caporaso on 2007-03-27 22:58:50 as along with 2 people and 1 group chad_davis skrofej biomedical-nlp
	Prediction error estimation: a comparison of resampling methods [My Copy] Bioinformatics, Vol. 21, No. 15. (1 August 2005), pp. 3301-3307. by Annette M. Molinaro, Richard Simon, Ruth M. Pfeiffer posted to cross-validation data-mining machine-learning statistics by caporaso on 2007-03-19 23:33:34 as along with 2 people and 1 group rdiaz winterschlaefer biomedical-nlp
	God: The Failed Hypothesis. How Science Shows That God Does Not Exist [My Copy] (25 January 2007) by Victor J. Stenger posted to evolution by caporaso on 2007-03-08 21:17:56 as along with 1 person and 1 group ultrascichick biomedical-nlp
	Genomic biodiversity, phylogenetics and coevolution in proteins. [My Copy] Appl Bioinformatics, Vol. 1, No. 2. (2002), pp. 81-92. by D. D. Pollock posted to coevolution by caporaso on 2007-02-26 18:02:10 as along with 1 person and 1 group chrys biomedical-nlp
	MAFFT version 5: improvement in accuracy of multiple sequence alignment. [My Copy] Nucleic acids research, Vol. 33, No. 2. (2005), pp. 511-518. by K. Katoh, K. Kuma, H. Toh, T. Miyata posted to alignment sequence by caporaso on 2006-12-08 08:45:07 as along with 8 people and 1 group hryk BioNica druvus treangen CharlesM rabio timflutre urgi biomedical-nlp
	Structural Genomics [My Copy] In Structural Bioinformatics (2003), pp. 591-612. by Stephen K. Burley, Jeffrey B. Bonanno edited by Philip E. Bourne, Helge Weissig posted to structural-genomics-consortium structure by caporaso on 2006-12-07 17:06:03 as along with 1 group biomedical-nlp
	Structural Bioinformatics in Drug Discovery [My Copy] In Structural Bioinformatics (2003), pp. 477-497. by Eric B. Fauman, Andrew L. Hopkins, Colin R. Groom edited by Philip E. Bourne, Helge Weissig posted to drug-design druggability structural-biology by caporaso on 2006-12-07 16:46:23 as along with 1 group biomedical-nlp
	Structure Comparison and Alignment [My Copy] In Structural Bioinformatics (2003), pp. 321-337. by Philip E. Bourne, Ilya N. Shindyalov edited by Philip E. Bourne, Helge Weissig posted to alignment structural-biology structure by caporaso on 2006-12-07 16:42:32 as along with 1 group biomedical-nlp
	Chemical space and biology [My Copy] Nature, Vol. 432, No. 7019. (16 December 2004), pp. 824-828. by Christopher M. Dobson posted to chemistry minor-proposal by caporaso on 2006-12-07 01:08:17 as along with 5 people and 3 groups VGreiff bertelsen LamBras kuhn marcius biomedical-nlp BioinfoCIPF SGU-CIPF
	Methods for the prediction of protein-ligand binding sites for structure-based drug design and virtual ligand screening. [My Copy] Curr Protein Pept Sci, Vol. 7, No. 5. (October 2006), pp. 395-406. by A. T. Laurie, R. M. Jackson posted to drug-design minor-proposal by caporaso on 2006-12-06 19:26:00 as along with 1 group biomedical-nlp
	Biochemistry, Fifth Edition : International Version [My Copy] (15 February 2002) by Jeremy M. Berg, John L. Tymoczko, Lubert Stryer posted to biochem by caporaso on 2006-12-05 05:10:40 as along with 4 people and 2 groups brian ujh paolo dherkova Bioinformatics biomedical-nlp
	BioCreAtIvE task 1A: gene mention finding evaluation. [My Copy] BMC Bioinformatics, Vol. 6 Suppl 1 (2005) by A. Yeh, A. Morgan, M. Colosimo, L. Hirschman posted to biomedical nlp by caporaso on 2006-12-04 05:35:49 as along with 4 people and 2 groups yas helliontroy zlu johnkork T_lab biomedical-nlp
	Concept Recognition, Information Retrieval, and Machine Learning in Genomics Question-Answering [My Copy] In TREC Notebook (2006) by Gregory J. Caporaso, William A. Baumgartner, Hyunmin Kim, et al.Zhiyong Lu, Helen L. Johnson, Olga Medvedeva, Anna Lindemann, Lynne M. Fox, Elizabeth K. White, Bretonnel K. Cohen, Lawrence Hunter posted to biomedical data-mining hunter-lab nlp by caporaso on 2006-12-04 05:00:33 as along with 1 person and 1 group helliontroy biomedical-nlp
	TREC 2006 Genomics Track Overview [My Copy] In TREC Notebook (2006) by William Hersh, Aaron M. Cohen, Phoebe Roberts, Hari K. Rekapalli posted to biomedical data-mining nlp by caporaso on 2006-12-04 04:52:51 as along with 1 group biomedical-nlp
	Using information theory to search for co-evolving residues in proteins. [My Copy] Bioinformatics, Vol. 21, No. 22. (15 November 2005), pp. 4116-4124. by L. C. Martin, G. B. Gloor, S. D. Dunn, L. M. Wahl posted to bioi7712 coevolution compensatory comps information-theory major-proposal by caporaso on 2006-11-30 19:02:02 as along with 5 people and 1 group zambujo bioinfo rabio rsantana cjeans biomedical-nlp
	Structure-Based Identification of Small Molecule Binding Sites Using a Free Energy Model. [My Copy] J Chem Inf Model, Vol. 46, No. 6. (27 November 2006), pp. 2631-2637. by Ryan G. Coleman, Anna C. Salzberg, Alan C. Cheng posted to coevolution druggability by caporaso on 2006-11-30 04:20:19 as along with 2 people and 1 group cjeans tjimenez biomedical-nlp
	FlyBase: anatomical data, images and queries. [My Copy] Nucleic Acids Res, Vol. 34, No. Database issue. (1 January 2006) by G. Grumbling, V. Strelets posted to comps database genomics major-proposal by caporaso on 2006-11-28 23:20:33 as along with 2 people and 1 group juanitogarcia cmor biomedical-nlp
	MUSCLE: a multiple sequence alignment method with reduced time and space complexity. [My Copy] BMC bioinformatics, Vol. 5, No. 1. (19 August 2004) by R. C. Edgar posted to compare comps evolution major-proposal sequence by caporaso on 2006-11-13 20:28:08 as along with 18 people and 4 groups hryk BioNica natstreet Md_2007 sebk wallacei knaseanka chrn jwm balajis gbart sriram_s cdallett sanchezbuelna timflutre gisle urgi Ema References for 3DSim paper Radiation_Damage Stressosome biomedical-nlp
	Residue coevolution: Modeling and interpretation [My Copy] (August 2006) by Zhengyuan Wang posted to coevolution compensatory comps major-proposal by caporaso on 2006-11-11 00:44:42 as along with 1 group biomedical-nlp
	Sarcomeric Proteins and Familial Hypertrophic Cardiomyopathy: Linking Mutations in Structural Proteins to Complex Cardiovascular Phenotypes [My Copy] Heart Failure Reviews, Vol. 10, No. 3. (September 2005), pp. 237-248. by Jil Tardiff posted to comps major-proposal myosin by caporaso on 2006-11-11 00:39:35 as along with 1 group biomedical-nlp
	Context dependence and coevolution among amino acid residues in proteins. [My Copy] Methods Enzymol, Vol. 395 (2005), pp. 779-790. by Z. O. Wang, D. D. Pollock posted to coevolution major-proposal protein by caporaso on 2006-11-08 15:08:49 as along with 1 group biomedical-nlp
	Effectiveness of correlation analysis in identifying protein residues undergoing correlated evolution. [My Copy] Protein Eng, Vol. 10, No. 6. (June 1997), pp. 647-657. by D. D. Pollock, W. R. Taylor posted to coevolution compensatory major-proposal mutation by caporaso on 2006-11-08 01:01:53 as along with 2 people and 1 group janani137 friendpine biomedical-nlp
	Why are some human disease-associated mutations fixed in mice? [My Copy] Trends Genet, Vol. 19, No. 12. (December 2003), pp. 678-681. by L. Gao, J. Zhang posted to compensatory evolution major-proposal mutation by caporaso on 2006-11-07 17:29:36 as along with 1 person and 1 group bpcusack biomedical-nlp
	The Role of Compensatory Mutations in the Emergence of Drug Resistance. [My Copy] PLoS Comput Biol, Vol. 2, No. 10. (13 October 2006) by Andreas Handel, Roland R R. Regoes, Rustom Antia posted to compensatory major-proposal mutation by caporaso on 2006-10-29 22:56:02 as along with 1 person and 1 group ramensky biomedical-nlp
	Characterization of Compensated Mutations in Terms of Structural and Physico-Chemical Properties. [My Copy] J Mol Biol (26 September 2006) by Carles Ferrer-Costa, Modesto Orozco, Xavier de la D. Cruz posted to compensatory major-proposal mutation by caporaso on 2006-10-29 22:54:53 as along with 3 people and 2 groups ramensky cat_worth cjeans structural_bioinformatics biomedical-nlp
	Relevance based language models [My Copy] In SIGIR '01: Proceedings of the 24th annual international ACM SIGIR conference on Research and development in information retrieval (2001), pp. 120-127. by Victor Lavrenko, Bruce W. Croft posted to information-retrieval nlp by caporaso on 2006-10-25 02:14:46 as along with 11 people and 5 groups jgronski dvallet mshossain lfriedl jelsas arjen ejmeij abellogin spinaltap526 codex iansimon NETS-UAM NETS biomedical-nlp ilps LanguageModeling
	Zone Identification in Biology Articles as a Basis for Information Extraction [My Copy] In Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (2004), pp. 29-35. by Y. Mizuta, N. Collier posted to nlp zone by caporaso on 2006-10-25 00:30:26 as along with 1 group biomedical-nlp
	A baseline feature set for learning rhetorical zones using full articles in the biomedical domain [My Copy] SIGKDD Explor. Newsl., Vol. 7, No. 1. (June 2005), pp. 52-58. by Tony Mullen, Yoko Mizuta, Nigel Collier posted to nlp zone by caporaso on 2006-10-25 00:27:30 as along with 2 people and 2 groups yas helliontroy T_lab biomedical-nlp
	Rule-based extraction of experimental evidence in the biomedical domain: the KDD Cup 2002 (task 1) [My Copy] SIGKDD Explor. Newsl., Vol. 4, No. 2. (December 2002), pp. 90-92. by Yizhar Regev, Michal Finkelstein-Landau, Ronen Feldman posted to nlp zone by caporaso on 2006-10-25 00:26:05 as along with 3 people and 2 groups Passerby yas balicea T_lab biomedical-nlp
	Direct memory access parsing. [My Copy] (1990) by Charles E. Martin posted to dmap by caporaso on 2006-10-25 00:20:40 as along with 1 person and 1 group lynnefox biomedical-nlp
	Building embedded conceptual parsers. [My Copy] (1995) by Will Fitzgerald posted to dmap by caporaso on 2006-10-25 00:15:29 as along with 1 person and 1 group lynnefox biomedical-nlp
	From conceptual analyzer to Direct Memory Access Parsing: an overview. [My Copy] In Advances in Cognitive Science (1986) by Christopher K. Riesbeck edited by N. E. Sharkey posted to dmap by caporaso on 2006-10-25 00:13:24 as along with 1 person and 1 group lynnefox biomedical-nlp
	Model-based feedback in the language modeling approach to information retrieval [My Copy] In CIKM '01: Proceedings of the tenth international conference on Information and knowledge management (2001), pp. 403-410. by Chengxiang Zhai, John Lafferty posted to information-retrieval by caporaso on 2006-10-24 22:49:46 as along with 8 people and 3 groups codex hongliangjie kevynct lfriedl ejmeij vitalaswp4 pprett abellogin biomedical-nlp ilps LanguageModeling
	Experiments Using the Lemur Toolkit [My Copy] In Text REtrieval Conference (2001) by Paul Ogilvie, James P. Callan posted to information-retrieval by caporaso on 2006-10-24 22:49:08 as along with 1 group biomedical-nlp
	Direct Memory Access Parsing [My Copy] Yale University Report, Vol. 354 (1985) by C. Riesbeck, C. Martin posted to dmap by caporaso on 2006-10-24 20:06:34 as along with 1 person and 1 group lynnefox biomedical-nlp
	Language Understanding is Recognition, Not Construction [My Copy] Psycoloquy, Vol. 5, No. 38. (1994) by Christopher K. Riesbeck, Will Fitzgerald posted to dmap by caporaso on 2006-10-24 20:02:50 as along with 1 person and 1 group lynnefox biomedical-nlp
	Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. [My Copy] Nat Genet, Vol. 25, No. 1. (May 2000), pp. 25-29. by M. Ashburner, C. A. Ball, J. A. Blake, et al.D. Botstein, H. Butler, J. M. Cherry, A. P. Davis, K. Dolinski, S. S. Dwight, J. T. Eppig, M. A. Harris, D. P. Hill, L. Issel-Tarver, A. Kasarskis, S. Lewis, J. C. Matese, J. E. Richardson, M. Ringwald, G. M. Rubin, G. Sherlock posted to bioinformatics nlp by caporaso on 2006-10-24 19:09:35 as along with 56 people and 7 groups ocs marti robert85 allysonlister daforerog chasmand lawraga jorisslob bertelsen mshossain ajbattle paszkows coela fbristow kshameer anthropomorphism nolodie dagmar Robinder verdicchio raistrick vertikalist aalibes miguel dragonrez lfriedl chad_davis yas balajis indigoviolet benny dullhunk nirfriedman fisherp helliontroy zlu gurkanbebek djkt massivemayhem incovoma leechuck aconesa sgoetz javamint bootsy PunkRock natstreet naegele CitoJam pablomendes carlk marck dgront roys rvosa fongenae BTS-PT-AS-CS kdl Bioinformatics EisenLab T_lab biomedical-nlp FAB-lab

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