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Tag protein-function [30 articles]

Recent papers classified by the tag protein-function.
  • Text mining and protein annotations: the construction and use of protein description sentences.
    Genome Inform, Vol. 17, No. 2. (2006), pp. 121-130.
    by M Krallinger, R Malik, A Valencia
    posted to protein-function text-mining by yas on 2007-05-24 16:53:30 as ** along with 1 person and 1 group florianleitner T_lab
  • BioPP: A Tool for Web-publication of Biological Networks
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Ganesh Viswanathan, German Nudelman, Sonali Patil, Stuart Sealfon
    posted to protein-function software by yas on 2007-05-23 13:03:50 as ** along with 3 people and 1 group lptolik guhjy thomaskelder T_lab
  • The PROSITE database.
    Nucleic Acids Res, Vol. 34, No. Database issue. (1 January 2006)
    by N Hulo, A Bairoch, V Bulliard, L Cerutti, E De Castro, PS Langendijk-Genevaux, M Pagni, CJ Sigrist
    posted to database protein-function by yas on 2007-05-01 12:36:32 as ** along with 5 people and 1 group happy_manatee sriram_s neils massivemayhem siebertm T_lab
  • The PANTHER database of protein families, subfamilies, functions and pathways.
    Nucleic Acids Res, Vol. 33, No. Database issue. (1 January 2005)
    by H Mi, B Lazareva-Ulitsky, R Loo, A Kejariwal, J Vandergriff, S Rabkin, N Guo, A Muruganujan, O Doremieux, MJ Campbell, H Kitano, PD Thomas
    posted to database protein-function by yas on 2007-05-02 06:24:52 as ** along with 3 people and 2 groups Cortel xico AlexanderPico T_lab WetBiology
  • Reactome: a knowledgebase of biological pathways.
    Nucleic Acids Res, Vol. 33, No. Database issue. (1 January 2005)
    by G Joshi-Tope, M Gillespie, I Vastrik, P D'Eustachio, E Schmidt, B de Bono, B Jassal, GR Gopinath, GR Wu, L Matthews, S Lewis, E Birney, L Stein
    posted to database protein-function by yas on 2007-05-02 06:26:19 as ** along with 9 people and 1 group reyez aalibes kuhn dullhunk duartemolha massivemayhem cerami yggdrasil guhjy T_lab
  • ORegAnno: an open access database and curation system for literature-derived promoters, transcription factor binding sites and regulatory variation
    Bioinformatics, Vol. 22, No. 5. (1 March 2006), pp. 637-640.
    by SB Montgomery, OL Griffith, CM Bergman, M Bilenky, ED Pleasance, Y Prychyna, X Zhang, SJM Jones
    posted to database protein-function by yas on 2007-04-30 14:58:48 as ** along with 2 people and 3 groups cisevol fpattyn T_lab cis-regulatory-evolution BergmanLab
  • MetalDetector: a web server for predicting metal binding sites and disulfide bridges in proteins from sequence
    Bioinformatics (16 July 2008), btn371.
    by Marco Lippi, Andrea Passerini, Marco Punta, Burkhard Rost, Paolo Frasconi
    posted to biochemistry bioinformatics disulfide-bridges machine-learning metal-binding-sites prediction-servers protein-function protein-structure by paolo on 2008-08-14 13:59:31 as read along with 1 person and 1 group druvus Bioinformatics
  • Evolutionary information for specifying a protein fold
    Nature, Vol. 437, No. 7058., pp. 512-518.
    by Michael Socolich, Steve W Lockless, William P Russ, Heather Lee, Kevin H Gardner, Rama Ranganathan
    posted to protein-folding protein-function by massivemayhem on 2007-05-21 12:10:31 as ** along with 14 people and 5 groups ana barry lna bpb Einat balajis marcius gbart analogAI nirfriedman caporaso mingzhi bethbromley ca3295 structural_bioinformatics Bioinformatics biomedical-nlp BioinfoCIPF SGU-CIPF
  • Prediction and classification of protein functions
    Drug Discovery Today: Technologies, Vol. 3, No. 2. ( 2006), pp. 145-151.
    by Andreas Ruepp, Werner H Mewes
    posted to protein-function by massivemayhem on 2007-01-16 09:14:02 as **
  • FireDB--a database of functionally important residues from proteins of known structure.
    Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007)
    by G Lopez, A Valencia, M Tress
    posted to protein-ligand protein-function database by massivemayhem on 2007-01-24 13:04:15 as **
  • Advances in protein structure prediction and de novo protein design: A review
    Chemical Engineering Science, Vol. 61, No. 3. (February 2006), pp. 966-988.
    by CA Floudas, HK Fung, SR Mcallister, M Monnigmann, R Rajgaria
    posted to protein-function protein-modelling protein-structure by massivemayhem on 2007-09-06 16:22:01 as ** along with 2 people schuylrp granujilla
  • Pfam: clans, web tools and services.
    Nucleic Acids Res, Vol. 34, No. Database issue. (1 January 2006), pp. 247-251.
    by RD Finn, J Mistry, B Schuster-Böckler, S Griffiths-Jones, V Hollich, T Lassmann, S Moxon, M Marshall, A Khanna, R Durbin, SR Eddy, EL Sonnhammer, A Bateman
    posted to database protein-function protein-structure by massivemayhem on 2007-06-12 13:08:50 as ** along with 11 people cerca gbart dullhunk cjeans siebertm lpfernandes pablomendes antonkratz natstreet Lombardo_7 phoenixzxl
  • Network-based prediction of protein function
    Mol Syst Biol, Vol. 3 (13 March 2007)
    by Roded Sharan, Igor Ulitsky, Ron Shamir
    posted to networks pathways protein-function systems-biology by massivemayhem on 2007-05-12 10:39:13 as ** along with 13 people and 1 group druvus pengchy jjray cmmorel wnpx julius mikaelhuss cjeans iris_2001 karfunkel mingzhi ellakat carlk SysbioMPI-TCells
  • Collecting and organizing systematic sets of protein data
    Nature Reviews Molecular Cell Biology, Vol. 7, No. 11., pp. 803-812.
    by John G Albeck, Gavin Macbeath, Forest M White, Peter K Sorger, Douglas A Lauffenburger, Suzanne Gaudet
    posted to systems-biology reviews protein-function by massivemayhem on 2007-01-18 10:38:24 as ** along with 5 people and 3 groups balajis jaycopeland cdppublications cdpwebadmin shikin SorgerLab CDP GeneGo
  • JOY: protein sequence-structure representation and analysis.
    Bioinformatics, Vol. 14, No. 7. (1998), pp. 617-623.
    by K Mizuguchi, CM Deane, TL Blundell, MS Johnson, JP Overington
    posted to protein-function protein-structure software by massivemayhem on 2007-06-29 09:14:13 as ** along with 7 people bicko chrn laurabailey medic0747 cdeane sebk TOchi
  • Residue centrality, functionally important residues, and active site shape: analysis of enzyme and non-enzyme families.
    Protein Sci, Vol. 15, No. 9. (September 2006), pp. 2120-2128.
    by A del Sol, H Fujihashi, D Amoros, R Nussinov
    posted to algorithm networks protein-function by massivemayhem on 2007-06-12 14:39:03 as ** along with 4 people neils bicko drastic choonpeng
  • Predicting the Effects of Amino Acid Substitutions on Protein Function.
    Annu Rev Genomics Hum Genet (9 August 2005)
    by Pauline C C Ng, Steven Henikoff
    posted to protein-function algorithm by massivemayhem on 2007-01-16 18:09:43 as ** along with 7 people and 2 groups daforerog Einat caporaso hdopazo ramensky cat_worth lpfernandes structural_bioinformatics biomedical-nlp
  • Network Analysis of Protein Structures Identifies Functional Residues
    Journal of Molecular Biology, Vol. 344, No. 4. (3 December 2004), pp. 1135-1146.
    by Gil Amitai, Arye Shemesh, Einat Sitbon, Maxim Shklar, Dvir Netanely, Ilya Venger, Shmuel Pietrokovski
    posted to algorithm networks protein-function by massivemayhem on 2007-06-12 14:27:44 as ** along with 7 people and 1 group chrn vavi bicko Einat amitai sriram_s siebertm structural_bioinformatics
  • The Catalytic Site Atlas: a resource of catalytic sites and residues identified in enzymes using structural data.
    Nucleic Acids Res, Vol. 32, No. Database issue. (1 January 2004)
    by CT Porter, GJ Bartlett, JM Thornton
    posted to database protein-function by massivemayhem on 2007-06-12 13:05:20 as ** along with 9 people and 2 groups tjimenez baaden chrn jwm gbart tny sriram_s siebertm grottenolm Radiation_Damage Stressosome
  • How accurate and statistically robust are catalytic site predictions based on closeness centrality?
    BMC Bioinformatics, Vol. 8 (11 May 2007), 153.
    by Eric Chea, Dennis R Livesay
    posted to algorithm protein-function by massivemayhem on 2007-05-23 14:34:23 as ** along with 2 people and 1 group neils Einat structural_bioinformatics
  • CASTp: Computed Atlas of Surface Topography of proteins
    Nucl. Acids Res., Vol. 31, No. 13. (1 July 2003), pp. 3352-3355.
    by Andrew T Binkowski, Shapor Naghibzadeh, Jie Liang
    posted to protein-structure protein-function by MarcoAlvarez on 2008-11-20 21:57:29 as ****
  • Distinguishing Enzyme Structures from Non-enzymes Without Alignments
    Journal of Molecular Biology, Vol. 330, No. 4. (18 July 2003), pp. 771-783.
    by Paul D Dobson, Andrew J Doig
    posted to support-vector-machine protein-function by MarcoAlvarez on 2008-09-12 07:15:27 as ***
  • Protein function prediction via graph kernels.
    Bioinformatics, Vol. 21, No. suppl_1. (1 June 2005)
    by Karsten MM Borgwardt, Cheng, Stefan Schönauer, SVNV Vishwanathan, Alex JJ Smola, Hans-Peter P Kriegel
    posted to support-vector-machine protein-function graph-kernel by MarcoAlvarez on 2008-09-12 07:20:12 as ***** along with 8 people and 4 groups tmmurali okarsligil vavi lfriedl marcius eweaver kt wnpx kdl Bioinformatics BioinfoCIPF SGU-CIPF
  • The linked conservation of structure and function in a family of high diversity: the monomeric cupredoxins.
    Structure, Vol. 12, No. 6. (June 2004), pp. 917-925.
    by J Gough, C Chothia
    posted to protein_structure protein-function conservation by Einat to the group structural_bioinformatics on 2007-04-11 13:00:07 as ***** along with 1 person cjeans
  • The Generation of New Protein Functions by the Combination of Domains
    Structure, Vol. 15, No. 1. (January 2007), pp. 85-99.
    by Matthew Bashton, Cyrus Chothia
    posted to protein-function domains by Einat to the group structural_bioinformatics on 2007-04-11 13:19:49 as ***** along with 6 people ucbcjbm tny madhadron choonpeng cjeans bioinfolib
  • Structure, function and evolution of multidomain proteins.
    Curr Opin Struct Biol, Vol. 14, No. 2. (April 2004), pp. 208-216.
    by C Vogel, M Bashton, ND Kerrison, C Chothia, SA Teichmann
    posted to review protein_structure protein-function evolution domains by Einat to the group structural_bioinformatics on 2007-04-11 13:18:01 as ***** along with 3 people Schmidtc cjeans cmzmasek
  • Evolution of protein fold in the presence of functional constraints
    Current Opinion in Structural Biology, Vol. 16, No. 3. (June 2006), pp. 399-408.
    by Antonina Andreeva, Alexey G Murzin
    posted to evolution protein-function protein_structure by Einat on 2007-02-20 13:45:01 as ** along with 4 people and 2 groups ana barry tny cjeans structural_bioinformatics Bioinformatics
  • Comparison of protein active site structures for functional annotation of proteins and drug design
    Proteins: Structure, Function, and Bioinformatics, Vol. 65, No. 1. (2006), pp. 124-135.
    by Robert Powers, Jennifer C Copeland, Katherine Germer, Kelly A Mercier, Viswanathan Ramanathan, Peter Revesz
    posted to active-site protein-function by conkymacro on 2006-08-28 10:33:58 as **** along with 1 person massivemayhem
  • Rank information: A structure-independent measure of evolutionary trace quality that improves identification of protein functional sites
    Proteins: Structure, Function, and Bioinformatics, Vol. 65, No. 1. (2006), pp. 111-123.
    by Hui Yao, Ivana Mihalek, Olivier Lichtarge
    posted to evolutionary-info protein-function by conkymacro on 2006-08-28 10:43:24 as ****
  • Design of protein function leaps by directed domain interface evolution
    Proceedings of the National Academy of Sciences (29 April 2008), 0801097105.
    by Jin Huang, Akiko Koide, Koki Makabe, Shohei Koide
    posted to biochemistry domain-evolution domain-interface-evolution evolution protein-function proteins by cmzmasek on 2008-04-30 20:42:56 as ** along with 5 people GeeSharpMinor choonpeng zwang marck phoenixzxl
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