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Group: baker-group - with tag bioinformatics [431 articles]

グループ baker-group のメンバーが最近追加した論文の一覧 with tag bioinformatics
  • Ontology-based knowledge representation for bioinformatics
    Brief Bioinform, Vol. 1, No. 4. (1 January 2000), pp. 398-414.
    by Robert Stevens, Carole A Goble, Sean Bechhofer
    posted to bioinformatics ontology by sobolevnrm to the group baker-group on 2008-07-22 12:45:21 as read along with 4 people and 1 group irenas PunkRock gmonce alanrw dbk-lab
  • Where are the semantics in the semantic web?
    AI Mag., Vol. 24, No. 3. (September 2003), pp. 25-36.
    by Michael Uschold
    posted to bioinformatics ontology by sobolevnrm to the group baker-group on 2008-07-22 12:40:41 as read along with 8 people and 3 groups freecia wcrosbie dullhunk hpiwowar wasp mzygmunt RafG SeminarIW Semantic-Social-Networks Wikipedia CoP_CMS
  • Dimensions of knowledge sharing and reuse
    Computers and Biomedical Research, Vol. 25, No. 5. (October 1992), pp. 435-467.
    by Mark A Musen
    posted to bioinformatics ontology software by sobolevnrm to the group baker-group on 2008-07-22 12:39:45 as read
  • Overview and utilization of the NCI Thesaurus
    Comparative and Functional Genomics, Vol. 5, No. 8. (December 2004), pp. 648-654.
    by Fragoso Gilberto, De C Sherri, Haber Margaret, Hartel Frank, Wright Larry
    posted to bioinformatics ontology by sobolevnrm to the group baker-group on 2008-07-22 12:22:49 as read
  • Sequence Ontology annotation guide: Conference Papers
    Comp. Funct. Genomics, Vol. 5, No. 8. (December 2004), pp. 642-647.
    by Karen Eilbeck, Suzanna E Lewis
    posted to bioinformatics ontology by sobolevnrm to the group baker-group on 2008-07-22 12:21:37 as read along with 1 person vlachmore
  • Very fast prediction and rationalization of p<I>K</I><SUB><FONT SIZE='-1'>a</FONT></SUB> values for protein-ligand complexes
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA.
    by Delphine C Bas, David M Rogers, Jan H Jensen
    posted to bioinformatics electrostatics pka software solvation by sobolevnrm to the group baker-group on 2008-07-22 11:48:46 as read along with 1 person RamuAnandakrishnan
  • Annotation-Modules: A tool for finding significant combinations of multisource annotations for gene lists.
    Bioinformatics (Oxford, England) (8 May 2008)
    by Michael Hackenberg, Rune Matthiesen
    posted to bioinformatics ontology by sobolevnrm to the group baker-group on 2008-07-10 12:01:37 as read along with 2 people jyuh barriot
  • Dynameomics: a multi-dimensional analysis-optimized database for dynamic protein data
    Protein Engineering, Design and Selection, Vol. 21, No. 6. (1 June 2008), pp. 379-386.
    by Catherine Kehl, Andrew M Simms, Rudesh D Toofanny, Valerie Daggett
    posted to bioinformatics database molecular_dynamics by sobolevnrm to the group baker-group on 2008-07-10 11:58:23 as read
  • Dynameomics: design of a computational lab workflow and scientific data repository for protein simulations
    Protein Engineering, Design and Selection, Vol. 21, No. 6. (1 June 2008), pp. 369-377.
    by Andrew M Simms, Rudesh D Toofanny, Catherine Kehl, Noah C Benson, Valerie Daggett
    posted to bioinformatics database molecular_dynamics by sobolevnrm to the group baker-group on 2008-07-10 11:56:38 as read
  • Dynameomics: mass annotation of protein dynamics and unfolding in water by high-throughput atomistic molecular dynamics simulations
    Protein Engineering, Design and Selection, Vol. 21, No. 6. (1 June 2008), pp. 353-368.
    by David A Beck, Amanda L Jonsson, Dustin R Schaeffer, Kathryn A Scott, Ryan Day, Rudesh D Toofanny, Darwin O Alonso, Valerie Daggett
    posted to bioinformatics database molecular_dynamics protein_folding by sobolevnrm to the group baker-group on 2008-07-10 11:55:39 as read
  • Multiple protein sequence alignment
    Current Opinion in Structural Biology, Vol. In Press, Corrected Proof
    by Jimin Pei
    posted to bioinformatics review by sobolevnrm to the group baker-group on 2008-07-08 12:00:25 as read along with 5 people agustinarce zwang TOchi paulschlesinger marck
  • Absorption Classification of Oral Drugs Based on Molecular Surface Properties
    J. Med. Chem., Vol. 46, No. 4. (13 February 2003), pp. 558-570.
    by CAS Bergstrom, M Strafford, L Lazorova, A Avdeef, K Luthman, P Artursson
    posted to bioinformatics drug_design electrostatics solvation by sobolevnrm to the group baker-group on 2008-06-30 15:29:07 as read
  • The interdependence of protein surface topography and bound water molecules revealed by surface accessibility and fractal density measures
    Journal of Molecular Biology, Vol. 228, No. 1. (5 November 1992), pp. 13-22.
    by Leslie A Kuhn, Michael A Siani, Michael E Pique, Cindy L Fisher, Elizabeth D Getzoff, John A Tainer
    posted to bioinformatics solvation structure by sobolevnrm to the group baker-group on 2008-06-30 15:25:55 as read
  • Improved p<I>K</I><SUB><FONT SIZE='-1'>a</FONT></SUB> prediction: Combining empirical and semimicroscopic methods
    Journal of Computational Chemistry, Vol. 9999, No. 9999. (2008), NA.
    by Gernot Kieseritzky, EW Knapp
    posted to bioinformatics electrostatics pka solvation by sobolevnrm to the group baker-group on 2008-06-27 18:08:01 as read along with 1 person RamuAnandakrishnan
  • PageRank without hyperlinks: reranking with PubMed related article networks for biomedical text retrieval
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Jimmy Lin
    posted to bioinformatics by sobolevnrm to the group baker-group on 2008-06-06 19:39:54 as read along with 9 people Gaetan dullhunk reyez neils msampson chad_davis jyuh irenas entropy
  • Visualization of unfavorable interactions in protein folds
    Bioinformatics, Vol. 24, No. 9. (1 May 2008), pp. 1206-1207.
    by Christian X Weichenberger, Piotr Byzia, Manfred J Sippl
    posted to bioinformatics software structure by sobolevnrm to the group baker-group on 2008-06-06 11:24:32 as read
  • Perturbational profiling of nanomaterial biologic activity
    Proceedings of the National Academy of Sciences (20 May 2008), 0802878105.
    by Stanley Y Shaw, Elizabeth C Westly, Mikael J Pittet, Aravind Subramanian, Stuart L Schreiber, Ralph Weissleder
    posted to bioinformatics ccne nanotech by sobolevnrm to the group baker-group on 2008-05-27 16:42:51 as read
  • BioRAT: extracting biological information from full-length papers.
    Bioinformatics, Vol. 20, No. 17. (22 November 2004), pp. 3206-3213.
    by DP Corney, BF Buxton, WB Langdon, DT Jones
    posted to bioinformatics by sobolevnrm to the group baker-group on 2008-05-22 02:25:05 as read along with 9 people and 4 groups camster snuppepuppan irenas Enro jyuh A_Olympia helliontroy massivemayhem satre Philosophy_of_Information dbk-lab Blog_and_Wiki_Research biomedical-nlp
  • PROMALS3D: a tool for multiple protein sequence and structure alignments.
    Nucleic Acids Res (20 February 2008)
    by Jimin Pei, Bong-Hyun H Kim, Nick V V Grishin
    posted to bioinformatics software by sobolevnrm to the group baker-group on 2008-05-21 11:38:09 as read along with 2 people newton1234 sunhwan
  • Analysis of the residue-residue coevolution network and the functionally important residues in proteins
    Proteins (in press)
    by BC Lee, K Park, D Kim
    posted to bioinformatics correlated_mutations by sobolevnrm to the group baker-group on 2008-05-15 11:44:28 as read
  • Detecting evolutionary relationships across existing fold space, using sequence order-independent profile-profile alignments
    Proceedings of the National Academy of Sciences, Vol. 105, No. 14. (8 April 2008), pp. 5441-5446.
    by Lei Xie, Philip E Bourne
    posted to bioinformatics structure by sobolevnrm to the group baker-group on 2008-05-12 12:07:16 as read along with 1 person zwang
  • PDBML: the representation of archival macromolecular structure data in XML
    Bioinformatics, Vol. 21, No. 7. (01 April 2005), pp. 988-992.
    by Westbrook John, Ito Nobutoshi, Nakamura Haruki, Henrick Kim, M Berman
    posted to bioinformatics database structure by sobolevnrm to the group baker-group on 2008-05-05 21:23:40 as read along with 2 people neils chad_davis
  • Predicting RNA-binding sites from the protein structure based on electrostatics, evolution and geometry
    Nucl. Acids Res. (14 February 2008), gkn008.
    by Yao C Chen, Carmay Lim
    posted to bioinformatics electrostatics nucleic_acids protein-nucleic_acid_interactions structure by sobolevnrm to the group baker-group on 2008-04-29 11:22:51 as read along with 3 people kaarsinogen sunhwan marck
  • ONTO-PERL: An API supporting the development and analysis of bio-ontologies.
    Bioinformatics (1 February 2008)
    by E Antezana, M Egaña, B De Baets, M Kuiper, V Mironov
    posted to bioinformatics ontology software by sobolevnrm to the group baker-group on 2008-04-24 11:35:28 as read along with 4 people dansullivanblk jyuh dullhunk RockHI
  • Bayesian Ranking of Biochemical System Models.
    Bioinformatics (5 December 2007)
    by Vladislav Vyshemirsky, Mark A A Girolami
    posted to bioinformatics statistics systems_biology by sobolevnrm to the group baker-group on 2008-04-24 11:32:12 as read along with 5 people and 1 group ggallone jyuh bootsy lenov keithvass Jarman Lab
  • Quantifying the Relationships among Drug Classes
    J. Chem. Inf. Model. (13 March 2008)
    by J&#xe9 Hert, R&#xf4, Me, Michael J Keiser, John J Irwin, Tudor I Oprea, Brian K Shoichet
    posted to bioinformatics protein-ligand_interactions by sobolevnrm to the group baker-group on 2008-04-24 11:24:27 as read along with 3 people middledomain ucbcjbm jerome_ucsf_slb
  • webPIPSA: a web server for the comparison of protein interaction properties
    Nucl. Acids Res. (17 April 2008), gkn181.
    by Stefan Richter, Anne Wenzel, Matthias Stein, Razif R Gabdoulline, Rebecca C Wade
    posted to bioinformatics electrostatics pdb2pqr software structure by sobolevnrm to the group baker-group on 2008-04-18 19:21:27 as ** along with 1 person jyuh
  • In Silico Elucidation of the Molecular Mechanism Defining the Adverse Effect of Selective Estrogen Receptor Modulators
    PLoS Computational Biology, Vol. 3, No. 11. (2007), e217.
    by X Lei, J Wang, PE Bourne
    posted to bioinformatics electrostatics protein-ligand_interactions structure by sobolevnrm to the group baker-group on 2008-04-16 11:39:27 as read
  • Statistical Characterization of Protein Ensembles
    Computational Biology and Bioinformatics, IEEE/ACM Transactions on, Vol. 5, No. 1. (2008), pp. 42-55.
    by Diego Rother, Guillermo Sapiro, Vijay Pande
    posted to bioinformatics statistics structure by sobolevnrm to the group baker-group on 2008-04-01 12:33:37 as read
  • Transitive homology-guided structural studies lead to discovery of Cro proteins with 40% sequence identity but different folds
    Proceedings of the National Academy of Sciences, Vol. 105, No. 7. (19 February 2008), pp. 2343-2348.
    by Christian G Roessler, Branwen M Hall, William J Anderson, Wendy M Ingram, Sue A Roberts, William R Montfort, Matthew H Cordes
    posted to bioinformatics protein_engineering structure by sobolevnrm to the group baker-group on 2008-03-13 11:41:42 as read along with 2 people barry cactus
  • Analysis of the residue-residue coevolution network and the functionally important residues in proteins
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA.
    by Byung-Chul Lee, Keunwan Park, Dongsup Kim
    posted to bioinformatics correlated_mutations by sobolevnrm to the group baker-group on 2008-03-11 11:40:31 as read along with 7 people and 1 group barry neils mingzhi penpen926 scienbox wilbur friendpine structural_bioinformatics
  • WebLogo: A Sequence Logo Generator
    Genome Res., Vol. 14, No. 6. (1 June 2004), pp. 1188-1190.
    by Gavin E Crooks, Gary Hon, John-Marc Chandonia, Steven E Brenner
    posted to bioinformatics software by sobolevnrm to the group baker-group on 2008-03-04 19:56:01 as read along with 4 people and 1 group analogAI indigoviolet xiaobeizhao yevishere EisenLab
  • OpenDMAP: An open-source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-specific gene expression
    BMC Bioinformatics, Vol. 9 (31 January 2008), 78.
    by Lawrence Hunter, Zhiyong Lu, James Firby, William A Baumgartner, Helen L Johnson, Philip V Ogren, Bretonnel K Cohen
    posted to bioinformatics ontology by sobolevnrm to the group baker-group on 2008-02-28 12:32:24 as read along with 4 people thomaskelder jyuh satre yas
  • Getting Started in Text Mining
    PLoS Computational Biology, Vol. 4, No. 1. (1 January 2008), e20.
    by Bretonnel K Cohen, Lawrence Hunter
    posted to bioinformatics by sobolevnrm to the group baker-group on 2008-02-26 12:12:24 as read along with 4 people dullhunk livingthingdan chad_davis fgibson
  • The contrasting properties of conservation and correlated phylogeny in protein functional residue prediction
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Jonathan Manning, Emily Jefferson, Geoffrey Barton
    posted to bioinformatics correlated_mutations by sobolevnrm to the group baker-group on 2008-02-26 11:59:01 as read along with 2 people laughcry dgront
  • Defining functional distances over Gene Ontology
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Angela D Pozo, Florencio Pazos, Alfonso Valencia
    posted to bioinformatics ontology by sobolevnrm to the group baker-group on 2008-02-25 12:41:42 as read along with 6 people and 1 group barry tny grahamc barriot carlk jyuh Bioinformatics
  • MScanner: a classifier for retrieving Medline citations
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Graham Poulter, Daniel Rubin, Russ Altman, Cathal Seoighe
    posted to bioinformatics software by sobolevnrm to the group baker-group on 2008-02-19 19:04:24 as read along with 6 people hpiwowar jyuh Gaetan kharke eveillard bpcusack
  • Prediction of enzyme function based on 3D templates of evolutionarily important amino acids
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by David Kristensen, Matthew R Ward, Andreas M Lisewski, Serkan Erdin, Brian Chen, Viacheslav Fofanov, Marek Kimmel, Lydia Kavraki, Olivier Lichtarge
    posted to bioinformatics software structure by sobolevnrm to the group baker-group on 2008-02-18 12:27:33 as read along with 1 person neils
  • Corpus annotation for mining biomedical events from literature
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Jin D Kim, Tomoko Ohta, Jun'ichi Tsujii
    posted to bioinformatics by sobolevnrm to the group baker-group on 2008-02-15 12:19:11 as read along with 11 people and 1 group jyuh yas dullhunk bhaddow gmonce vlachmore wchapman mircea henk-cul gilesc aliekens dbmi-nlp
  • STRALCP structure alignment-based clustering of proteins
    Nucl. Acids Res., Vol. 35, No. 22. (3 December 2007), e150.
    by Adam Zemla, Brian Geisbrecht, Jason Smith, Marisa Lam, Bonnie Kirkpatrick, Mark Wagner, Tom Slezak, Carol E Zhou
    posted to bioinformatics database structure by sobolevnrm to the group baker-group on 2008-02-09 23:18:39 as read
  • Graph Theoretical Similarity Approach To Compare Molecular Electrostatic Potentials
    J. Chem. Inf. Model. (1 January 2008)
    by RM Marin, NF Aguirre, EE Daza
    posted to bioinformatics electrostatics graph_theory by sobolevnrm to the group baker-group on 2008-02-08 12:37:59 as read along with 2 people dimka daevans
  • Geometric diffusions as a tool for harmonic analysis and structure definition of data: Diffusion maps
    Proceedings of the National Academy of Sciences, Vol. 102, No. 21. (24 May 2005), pp. 7426-7431.
    by RR Coifman, S Lafon, AB Lee, M Maggioni, B Nadler, F Warner, SW Zucker
    posted to bioinformatics clustering mathematics quasiharmonic-models_elastic-network_gnm_nma_pca_etc by sobolevnrm to the group baker-group on 2008-02-01 15:54:49 as read along with 1 person kb
  • Getting Started in Probabilistic Graphical Models
    PLoS Computational Biology, Vol. 3, No. 12. (1 December 2007), e252.
    by Edoardo M Airoldi
    posted to bioinformatics systems_biology by sobolevnrm to the group baker-group on 2008-02-01 12:54:37 as read along with 12 people jyuh balicea AbnerCYH stajich cjeans GustavoLacerda GeeSharpMinor cabbagezs nklee biehl softsimu jfr
  • The caCORE Software Development Kit: streamlining construction of interoperable biomedical information services.
    BMC Med Inform Decis Mak, Vol. 6 (2006)
    by J Phillips, R Chilukuri, G Fragoso, D Warzel, PA Covitz
    posted to bioinformatics database nanotech sccne by sobolevnrm to the group baker-group on 2008-01-31 20:03:34 as read along with 1 person jfr
  • Mutual information without the influence of phylogeny or entropy dramatically improves residue contact prediction
    Bioinformatics, Vol. 24, No. 3. (1 February 2008), pp. 333-340.
    by SD Dunn, LM Wahl, GB Gloor
    posted to bioinformatics correlated_mutations by sobolevnrm to the group baker-group on 2008-01-31 12:19:53 as read along with 3 people bicko zwang marck
  • Enhanced performance in prediction of protein active sites with THEMATICS and support vector machines
    Protein Sci, Vol. 17, No. 2. (1 February 2008), pp. 333-341.
    by Wenxu Tong, Ronald J Williams, Ying Wei, Leonel F Murga, Jaeju Ko, Mary J Ondrechen
    posted to bioinformatics database software structure by sobolevnrm to the group baker-group on 2008-01-29 12:28:06 as read
  • Pattern vectors from algebraic graph theory
    Pattern Analysis and Machine Intelligence, IEEE Transactions on, Vol. 27, No. 7. (2005), pp. 1112-1124.
    by RC Wilson, ER Hancock, Bin Luo
    posted to bioinformatics graph_theory mathematics quasiharmonic-models_elastic-network_gnm_nma_pca_etc by sobolevnrm to the group baker-group on 2008-01-24 12:53:27 as read along with 1 person bigbossman
  • STITCH: interaction networks of chemicals and proteins.
    Nucleic Acids Res (15 December 2007)
    by Michael Kuhn, Christian von Mering, Monica Campillos, Lars Juhl J Jensen, Peer Bork
    posted to bioinformatics database protein-ligand_interactions by sobolevnrm to the group baker-group on 2008-01-24 12:53:09 as read along with 6 people jyuh balicea massivemayhem bootsy larsjuhljensen higueruelo
  • The origin of protein interactions and allostery in colocalization
    Nature, Vol. 450, No. 7172. (12 December 2007), pp. 983-990.
    by John Kuriyan, David Eisenberg
    posted to allostery bioinformatics protein-protein_interactions structure by sobolevnrm to the group baker-group on 2008-01-22 12:31:35 as read along with 4 people cjeans mingzhi phoenixzxl higueruelo
  • Localizing frustration in native proteins and protein assemblies
    Proceedings of the National Academy of Sciences (5 December 2007), 0709915104.
    by Diego U Ferreiro, Joseph A Hegler, Elizabeth A Komives, Peter G Wolynes
    posted to bioinformatics molecular_simulation protein-ligand_interactions protein-protein_interactions structure by sobolevnrm to the group baker-group on 2008-01-21 12:49:28 as read along with 2 people cjeans cactus
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