eweaver's library [308 articles]

Recent papers added to eweaver's library.

	Use of simulated data sets to evaluate the fidelity of metagenomic processing methods - Nature Methods [My Copy] posted to no-tag by eweaver on 2007-11-13 06:25:52 as
	What is a gene, post-ENCODE? History and updated definition. [My Copy] Genome Res, Vol. 17, No. 6. (June 2007), pp. 669-681. by M. B. Gerstein, C. Bruce, J. S. Rozowsky, et al.D. Zheng, J. Du, J. O. Korbel, O. Emanuelsson, Z. D. Zhang, S. Weissman, M. Snyder posted to no-tag by eweaver on 2007-09-16 08:22:38 as along with 29 people and 4 groups tmarscha thegoose2 burak guhjy carolh12 dpollard balicea dchughes dullhunk madhadron cottrell grahamc egonw ghattem sujaikumar Garamonfok PunkRock jasonbobe PredictER cabbagezs Jporci kmdaily krokicki antonkratz Minty hpaces tharris altotor mjoach Bioinformatics EisenLab G4ID Genetics-of-Gambling
	Indexing dataspaces [My Copy] In SIGMOD '07: Proceedings of the 2007 ACM SIGMOD international conference on Management of data (2007), pp. 43-54. by Xin Dong, Alon Halevy posted to no-tag by eweaver on 2007-09-04 06:50:33 as along with 8 people and 1 group mogwaing rmbrad gladwig bozhaouiuc egh lillejul tulaydemir vannevarvision L3S
	The minimum information about a proteomics experiment (MIAPE) [My Copy] Nature Biotechnology, Vol. 25, No. 8. (08 August 2007), pp. 887-893. by Chris F. Taylor, Norman W. Paton, Kathryn S. Lilley, et al.Pierre-Alain Binz, Randall K. Julian, Andrew R. Jones, Weimin Zhu, Rolf Apweiler, Ruedi Aebersold, Eric W. Deutsch, Michael J. Dunn, Albert J. R. Heck, Alexander Leitner, Marcus Macht, Matthias Mann, Lennart Martens, Thomas A. Neubert, Scott D. Patterson, Peipei Ping, Sean L. Seymour, Puneet Souda, Akira Tsugita, Joel Vandekerckhove, Thomas M. Vondriska, Julian P. Whitelegge, Marc R. Wilkins, Ioannnis Xenarios, John R. Yates, Henning Hermjakob posted to no-tag by eweaver on 2007-08-31 01:31:17 as along with 5 people and 1 group guhjy hpiwowar nedwards alanrw fgibson GelML
	DarkHorse: a method for genome-wide prediction of horizontal gene transfer [My Copy] Genome Biology, Vol. 8 (02 February 2007), R16. by Sheila Podell, Terry Gaasterland posted to bacteria prediction transfer by eweaver on 2007-07-27 03:40:09 as along with 2 people operon karfunkel
	A reductionist's systems biology: opinion. [My Copy] Curr Opin Cell Biol, Vol. 17, No. 1. (February 2005), pp. 9-11. by P. K. Sorger posted to no-tag by eweaver on 2007-03-31 14:11:30 as along with 4 people and 2 groups alexg jaycopeland cdppublications guhjy SorgerLab CDP
	A Bioinformatics Perspective on Proteomics: Data Storage, Analysis, and Integration [My Copy] Bioscience Reports, Vol. 25, No. 1-2. (February 2005), pp. 95-106. by Andreas Kremer, Reinhard Schneider, Georg Terstappen posted to no-tag by eweaver on 2007-03-29 00:45:29 as along with 3 people and 1 group agileproteomics pgan fgibson GelML
	Understanding the computational methodologies of systems biology [My Copy] Brief Bioinform, Vol. 7, No. 4. (1 December 2006), pp. 315-317. by Werner Dubitzky posted to no-tag by eweaver on 2007-03-26 22:11:55 as
	CAMERA: A Community Resource for Metagenomics [My Copy] PLoS Biology, Vol. 5, No. 3. (1 March 2007), e75. by Rekha Seshadri, Saul A. Kravitz, Larry Smarr, Paul Gilna, Marvin Frazier posted to no-tag by eweaver on 2007-03-16 21:22:08 as along with 4 people and 1 group idoerg jdelcampo beatrizfernandez AlexanderPico Microbial-Ecology
	Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. [My Copy] Bioinformatics, Vol. 22, No. 13. (1 July 2006), pp. 1658-1659. by W. Li, A. Godzik posted to no-tag by eweaver on 2007-03-16 21:10:26 as along with 4 people and 2 groups guhjy indigoviolet caporaso gisle EisenLab biomedical-nlp
	BIRCH: A user-oriented, locally-customizable, bioinformatics system [My Copy] BMC Bioinformatics, Vol. 8 (09 February 2007), 54. by Brian Fristensky posted to no-tag by eweaver on 2007-03-15 16:16:39 as along with 2 people druvus guhjy
	Open source tools and toolkits for bioinformatics: significance, and where are we? [My Copy] Brief Bioinform, Vol. 7, No. 3. (September 2006), pp. 287-296. by J. E. Stajich, H. Lapp posted to no-tag by eweaver on 2007-03-11 19:20:34 as along with 15 people and 2 groups kiekyon kshameer Cortel Vincent_Rouilly daforerog druvus viktor21614 krapnik Ayest yas indigoviolet moborg dgront stajich george_g EisenLab T_lab
	KDE Bioscience: Platform for bioinformatics analysis workflows [My Copy] Journal of Biomedical Informatics, Vol. 39, No. 4. (August 2006), pp. 440-450. by Qiang Lu, Pei Hao, Vasa Curcin, et al.Weizhong He, Yuan-Yuan Li, Qing-Ming Luo, Yi-Ke Guo, Yi-Xue Li posted to no-tag by eweaver on 2007-03-06 17:00:51 as along with 1 person and 3 groups dalloliogm Web2 splicing yeast
	Multiple structural alignment and clustering of RNA sequences. [My Copy] Bioinformatics (25 February 2007) by Elfar Torarinsson, Jakob H H. Havgaard, Jan Gorodkin posted to no-tag by eweaver on 2007-03-01 16:56:53 as along with 9 people and 2 groups zanexu Md_2007 marcius eckart_bindewald ppgardne ilh zwang dunnp zhouyu BioinfoCIPF SGU-CIPF
	The outcomes of pathway database computations depend on pathway ontology [My Copy] Nucl. Acids Res., Vol. 34, No. 13. (7 August 2006), pp. 3687-3697. by M. L. Green, P. D. Karp posted to no-tag by eweaver on 2007-02-27 10:44:28 as along with 1 person and 1 group kuhn Bioinformatics
	Systematic assignment of thermodynamic constraints in metabolic networks models [My Copy] BMC Bioinformatics, Vol. 7 (23 November 2006), 512. by Anne Kummel, Sven Panke, Matthias Heinemann posted to no-tag by eweaver on 2007-02-27 10:36:58 as along with 3 people tny aswin JeremyZucker
	Reconstruction of metabolic networks from genome data and analysis of their global structure for various organisms. [My Copy] Bioinformatics, Vol. 19, No. 2. (22 January 2003), pp. 270-277. by H. Ma, A. P. Zeng posted to no-tag by eweaver on 2007-02-27 10:27:12 as along with 5 people coela schwartzjmc kuhn tny yoh
	Enzyme-specific profiles for genome annotation: PRIAM. [My Copy] Nucleic Acids Res, Vol. 31, No. 22. (15 November 2003), pp. 6633-6639. by C. Claudel-Renard, C. Chevalet, T. Faraut, D. Kahn posted to no-tag by eweaver on 2007-02-26 10:43:23 as along with 5 people and 1 group labedan Ayest JeremyZucker gelack shung MetabolicModeling
	Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [My Copy] Nucl. Acids Res., Vol. 25, No. 17. (1 September 1997), pp. 3389-3402. by S. F. Altschul, T. L. Madden, A. A. Schaffer, et al.J. Zhang, Z. Zhang, W. Miller, D. J. Lipman posted to no-tag by eweaver on 2007-02-26 10:41:12 as along with 57 people and 5 groups idoerg pjcite swp09 kgutwin mcbla cpwardell johanviklund daforerog nlapalu sebk tjimenez shung pwais dakelley knaseanka setar iakes miguel kaarsinogen bjorns bicko jmeppley chad_davis balajis nuke2005 david_parsons indigoviolet dullhunk robert dgront happy_manatee caporaso treangen kengg manzanita CitoJam jdelcampo aengisch rabio massivemayhem mirzazadeh azazello sujaikumar beatrizfernandez GustavoLacerda siebertm adijr viktor21614 mijam grottenolm bandrewfox edvin newton1234 mariakmejia granujilla marti CharlesM References for 3DSim paper EisenLab biomedical-nlp Microbial-Ecology Plantandetc
	Profile hidden Markov models. [My Copy] Bioinformatics (Oxford, England), Vol. 14, No. 9. (1998), pp. 755-763. by S. R. Eddy posted to no-tag by eweaver on 2007-02-26 10:40:40 as along with 13 people farhat BioNica druvus albert_swart miguel chad_davis dgront rabio cjeans suizan nklee yoanjacquemin ca3295
	BioWarehouse: a bioinformatics database warehouse toolkit [My Copy] BMC Bioinformatics, Vol. 7, No. 1. (2006) by Thomas Lee, Yannick Pouliot, Valerie Wagner, et al.Priyanka Gupta, David S. Calvert, Jessica Tenenbaum, Peter Karp posted to no-tag by eweaver on 2007-02-26 10:21:38 as along with 4 people druvus ptrobajo mircea Simplicity
	Bioclipse: An open source workbench for chemo- and bioinformatics [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (2007) by Ola Spjuth, Tobias Helmus, Egon Willighagen, et al.Stefan Kuhn, Martin Eklund, Johannes Wagener, Peter M. Rust, Christoph Steinbeck, Jarl Wikberg posted to no-tag by eweaver on 2007-02-22 16:45:53 as along with 10 people and 4 groups Effie nicklynch moborg dullhunk kehan fisherp egonw sci91078 guhjy alanrw NaCTeM biodiversity_conservation Bioinformatics GrassBase
	Combining One-Class Classifiers for Robust Novelty Detection in Gene Expression Data [My Copy] : Advances in Bioinformatics and Computational Biology (2005), pp. 54-64. by Eduardo J. Spinosa, Andrã© C. P. L. F. de Carvalho posted to no-tag by eweaver on 2007-02-16 18:53:57 as along with 1 person sdvillal
	The Pathway Tools software. [My Copy] Bioinformatics, Vol. 18 Suppl 1 (2002) by P. D. Karp, S. Paley, P. Romero posted to no-tag by eweaver on 2007-02-16 01:11:13 as along with 2 people shung JeremyZucker
	IdentiCS--identification of coding sequence and in silico reconstruction of the metabolic network directly from unannotated low-coverage bacterial genome sequence. [My Copy] BMC Bioinformatics, Vol. 5 (16 August 2004) by J. Sun, A. P. Zeng posted to no-tag by eweaver on 2007-02-15 18:51:13 as along with 1 person operon
	metaSHARK: software for automated metabolic network prediction from DNA sequence and its application to the genomes of Plasmodium falciparum and Eimeria tenella [My Copy] Nucleic Acids Research, Vol. 33, No. 4., pp. 1399-1409. by W. Pinney, W. Shirley, A. Mcconkey, R. Westhead posted to no-tag by eweaver on 2007-02-15 18:51:01 as along with 4 people and 2 groups jmeppley bsmagic shung hryk Bioinformatics bioinplant
	Mining literature for systems biology [My Copy] Briefings in Bioinformatics by Roberts posted to no-tag by eweaver on 2007-02-15 17:56:25 as
	Protein classification using ontology classification [My Copy] by K. Wolstencroft posted to no-tag by eweaver on 2007-02-15 17:55:35 as
	Towards multidimensional genome annotation [My Copy] Nature Reviews Genetics, Vol. 7, No. 2., pp. 130-141. by Jennifer L. Reed, Iman Famili, Ines Thiele, Bernhard O. Palsson posted to no-tag by eweaver on 2007-02-15 17:51:31 as along with 13 people and 4 groups mycomodel tobitas druvus guhjy jfr balajis dchughes cmm raiyar massivemayhem wenhan zwang lylu FAB-lab G4ID steinmetzlab Genetics-of-Gambling
	Accelerating the reconstruction of genome-scale metabolic networks. [My Copy] BMC bioinformatics, Vol. 7 (13 June 2006), 296. by R. A. Notebaart, F. H. van Enckevort, C. Francke, R. J. Siezen, B. Teusink posted to no-tag by eweaver on 2007-02-15 17:49:47 as along with 3 people and 1 group neilswainston JeremyZucker shung MetabolicModeling
	An Open Forum for Computational Biology [My Copy] PLoS Computational Biology, Vol. 1, No. 1. (1 June 2005), e5. by Michael Gribskov posted to no-tag by eweaver on 2007-02-15 17:48:47 as along with 1 person and 1 group dolhuis SNE
	Key biology databases go wiki [My Copy] Nature, Vol. 445, No. 7129. (14 February 2007), pp. 691-691. by Jim Giles posted to no-tag by eweaver on 2007-02-15 17:48:32 as along with 10 people and 6 groups druvus guhjy marcius kehan raiyar grahamc leechuck PunkRock barriot mircea biodiversity_conservation Bioinformatics BioinfoCIPF SGU-CIPF steinmetzlab GrassBase
	Web Service Mining for Biological Pathway Discovery [My Copy] : Data Integration in the Life Sciences (2005), pp. 292-295. by George Zheng, Athman Bouguettaya posted to no-tag by eweaver on 2007-02-15 17:45:23 as
	Data merging for integrated microarray and proteomic analysis [My Copy] Briefings in Functional Genomics and Proteomics by Waters posted to no-tag by eweaver on 2007-02-15 17:42:23 as
	From genomics to chemical genomics: new developments in KEGG. [My Copy] Nucleic Acids Res, Vol. 34, No. Database issue. (1 January 2006) by M. Kanehisa, S. Goto, M. Hattori, et al.K. F. Aoki-Kinoshita, M. Itoh, S. Kawashima, T. Katayama, M. Araki, M. Hirakawa posted to db kegg pathway_general by eweaver on 2007-02-15 17:34:01 as along with 16 people AaronDarling srp33 namunet guhjy aalibes kuhn balajis alexg tny dullhunk michC frohike incovoma sgoetz yggdrasil natstreet
	Development And Assessment Of Machine Learning Attributes For Ortholog Detection [My Copy] (June 2006) by Ying Lin posted to applied_analysis by eweaver on 2007-02-09 05:12:32 as
	Hierarchical Wrapper Induction for Semistructured Information Sources [My Copy] Autonomous Agents and Multi-Agent Systems, Vol. 4, No. 1/2. (2001), pp. 93-114. by Ion Muslea, Steven Minton, Craig A. Knoblock posted to data_extraction by eweaver on 2006-09-18 01:06:44 as along with 4 people and 1 group camster arsyed scis0000001 gridinoc dbk-lab
	Integrating biological databases [My Copy] Nat Rev Genet, Vol. 4, No. 5. (May 2003), pp. 337-345. by Lincoln D. Stein posted to db by eweaver on 2006-05-12 02:19:01 as along with 10 people ptrobajo neils neilernst vaija laszlo8 hpiwowar fisherp lei cjeans rvosa
	Integration of biological sources: current systems and challenges ahead [My Copy] SIGMOD Rec., Vol. 33, No. 3. (September 2004), pp. 51-60. by Thomas Hernandez, Subbarao Kambhampati posted to db by eweaver on 2006-05-12 02:18:51 as along with 2 people neilernst lei
	Database management for life sciences research [My Copy] SIGMOD Rec., Vol. 33, No. 2. (June 2004), pp. 15-20. by H. V. Jagadish, Frank Olken posted to db by eweaver on 2006-05-12 02:18:19 as along with 6 people and 1 group johnwilkes neilernst nearora wnpx lei jmuhlich SorgerLab
	Modeling biological systems: a unified approach [My Copy] SIGSOFT Softw. Eng. Notes, Vol. 30, No. 5. (September 2005), pp. 1-4. by Manuj Darbari, Vipin Saxena posted to software by eweaver on 2006-05-12 02:18:00 as along with 3 people neilernst wnpx mmt
	Automated discovery of 3D motifs for protein function annotation [My Copy] Bioinformatics, Vol. 22, No. 6. (15 March 2006), pp. 723-730. by Benjamin J. Polacco, Patricia C. Babbitt posted to protein_structure by eweaver on 2006-04-27 15:31:58 as along with 3 people and 2 groups MarcoAlvarez marcius rabio BioinfoCIPF SGU-CIPF
	Functional cartography of complex metabolic networks [My Copy] Nature, Vol. 433, No. 7028. (24 February 2005), pp. 895-900. by Roger Guimera, L. A. N. Luis posted to pathway_general by eweaver on 2006-04-27 15:31:46 as along with 21 people and 4 groups lawraga Scis0000002 vtraag cgaugain pdelosri cswinburne camster dbk BioGeek Borelli lfriedl balajis alexg tny wnpx cjeans kdang carlk RobMills Diego_Prada marcio streptomyces dbk-lab kdl Bioinformatics
	Metabolic pathways in the post-genome era [My Copy] Trends in Biochemical Sciences, Vol. 28, No. 5. (May 2003), pp. 250-258. by Jason A. Papin, Nathan D. Price, Sharon J. Wiback, David A. Fell, Bernhard O. Palsson posted to pathway_general by eweaver on 2006-04-27 15:31:33 as along with 2 people lflorez tny
	Proteomics to study genes and genomes [My Copy] Nature, Vol. 405, No. 6788. (15 June 2000), pp. 837-846. by Akhilesh Pandey, Matthias Mann posted to proteomics by eweaver on 2006-04-27 15:30:30 as along with 4 people and 1 group jmeppley fisherp Jporci fgibson GelML
	A comparative study of machine-learning methods to predict the effects of single nucleotide polymorphisms on protein function. [My Copy] Bioinformatics, Vol. 19, No. 17. (22 November 2003), pp. 2199-2209. by V. G. Krishnan, D. R. Westhead posted to machine_learning by eweaver on 2006-04-27 15:30:17 as along with 5 people and 3 groups chrn marcius caporaso rlhsiao rsantana biomedical-nlp BioinfoCIPF SGU-CIPF
	Membrane proteins: the 'Wild West' of structural biology. [My Copy] Trends Biochem Sci, Vol. 28, No. 3. (March 2003), pp. 137-144. by J. Torres, T. J. Stevens, M. Samsó posted to proteomics by eweaver on 2006-04-03 15:08:46 as along with 2 people and 2 groups marcius rsantana BioinfoCIPF SGU-CIPF
	It's a Small RNA World, After All [My Copy] Science, Vol. 309, No. 5740. (02 September 2005), pp. 1525-1526. by Matthew W. Vaughn, Rob Martienssen posted to rna by eweaver on 2006-04-03 15:08:32 as along with 2 people and 2 groups dayjm marcius BioinfoCIPF SGU-CIPF
	Beyond the proteome: non-coding regulatory RNAs. [My Copy] Genome Biol, Vol. 3, No. 5. (2002) by M. Szymański, J. Barciszewski posted to rna by eweaver on 2006-04-03 15:08:29 as along with 2 people and 3 groups marcius cdawson BioinfoCIPF SGU-CIPF GIG
	Experimental approaches to identify non-coding RNAs. [My Copy] Nucleic Acids Res, Vol. 34, No. 2. (2006), pp. 635-646. by A. Hüttenhofer, J. Vogel posted to rna by eweaver on 2006-04-03 15:08:24 as along with 8 people and 7 groups myrtilus marcius perrywoo dchughes tabu mtagaya cdawson bsmagic Bioinformatics G4ID BioinfoCIPF bioinplant SGU-CIPF GIG Genetics-of-Gambling

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