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タグ: major-proposal [65 articles]

Recent papers classified by the tag major-proposal.
  • Combining evidence, biomedical literature and statistical dependence: new insights for functional annotation of gene sets.
    BMC Bioinformatics, Vol. 7, No. 1. (4 May 2006)
    by Marc Aubry, Annabelle Monnier, Celine Chicault, Marie de Tayrac, Marie-Dominique D Galibert, Anita Burgun, Jean Mosser
    posted to clustering data-mining function major-proposal nlp protein by caporaso to the group biomedical-nlp on 2006-09-06 21:05:29 as ***** along with 5 people and 3 groups irenas yas dullhunk kkaiser yggdrasil dbk-lab T_lab IEG
  • Characterization of Compensated Mutations in Terms of Structural and Physico-Chemical Properties.
    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 to the group biomedical-nlp on 2006-10-29 22:54:53 as ***** along with 3 people and 1 group ramensky cat_worth cjeans structural_bioinformatics
  • Prediction of deleterious human alleles.
    Hum Mol Genet, Vol. 10, No. 6. (15 March 2001), pp. 591-597.
    by S Sunyaev, V Ramensky, I Koch, W Lathe, AS Kondrashov, P Bork
    posted to comps function major-proposal protein by caporaso to the group biomedical-nlp on 2006-09-13 01:56:16 as ***** along with 4 people and 1 group massivemayhem cat_worth lpfernandes adijr structural_bioinformatics
  • Dobzhansky-Muller incompatibilities in protein evolution.
    Proc Natl Acad Sci U S A, Vol. 99, No. 23. (12 November 2002), pp. 14878-14883.
    by AS Kondrashov, S Sunyaev, FA Kondrashov
    posted to compensatory evolution major-proposal mutation protein by caporaso to the group biomedical-nlp on 2006-10-02 20:48:25 as read along with 6 people and 1 group betainverse LeightonP mdimmic ccots cmm ramensky FAB-lab
  • Prediction of the phenotypic effects of non-synonymous single nucleotide polymorphisms using structural and evolutionary information.
    Bioinformatics, Vol. 21, No. 10. (15 May 2005), pp. 2185-2190.
    by L Bao, Y Cui
    posted to comps data-mining function major-proposal mutation structural-biology by caporaso to the group biomedical-nlp on 2006-09-06 23:23:15 as read along with 4 people and 1 group chrn bicko massivemayhem cat_worth structural_bioinformatics
  • From fold predictions to function predictions: automation of functional site conservation analysis for functional genome predictions.
    Protein Sci, Vol. 8, No. 5. (May 1999), pp. 1104-1115.
    by B Zhang, L Rychlewski, K Pawłowski, JS Fetrow, J Skolnick, A Godzik
    posted to comps database major-proposal minor-proposal structural-biology by caporaso to the group biomedical-nlp on 2006-09-04 20:10:34 as ***** along with 1 person sriram_s
  • 5' cleavage site in eukaryotic pre-mRNA splicing is determined by the overall 5' splice region, not by the conserved 5' GU.
    Cell, Vol. 50, No. 2. (17 July 1987), pp. 237-246.
    by M Aebi, H Hornig, C Weissmann
    posted to compensatory major-proposal mutation by caporaso to the group biomedical-nlp on 2006-09-29 00:56:39 as *****
  • A Novel Method for Detecting Intramolecular Coevolution: Adding a Further Dimension to Selective Constraints Analyses
    Genetics, Vol. 173, No. 1. (1 May 2006), pp. 9-23.
    by Mario A Fares, Simon A Travers
    posted to compensatory comps evolution major-proposal protein by caporaso to the group biomedical-nlp on 2006-09-08 19:24:36 as ***** along with 5 people and 2 groups stevanspringer operon breden cjeans tale FAB-lab SFUAntibodyResearch
  • MUSCLE: a multiple sequence alignment method with reduced time and space complexity.
    BMC Bioinformatics, Vol. 5, No. 1. (19 August 2004)
    by RC Edgar
    posted to compare comps evolution major-proposal sequence by caporaso to the group biomedical-nlp on 2006-11-13 20:28:08 as ***** along with 13 people and 2 groups wallacei knaseanka chrn jwm balajis gbart sriram_s cdallett sanchezbuelna timflutre gisle urgi Ema Radiation_Damage Stressosome
  • Predicting the functional consequences of non-synonymous single nucleotide polymorphisms: structure-based assessment of amino acid variation.
    J Mol Biol, Vol. 307, No. 2. (23 March 2001), pp. 683-706.
    by D Chasman, RM Adams
    posted to comps function major-proposal by caporaso to the group biomedical-nlp on 2006-09-13 01:53:59 as ***** along with 2 people chrn chad_davis
  • Evolution of an enzyme active site: the structure of a new crystal form of muconate lactonizing enzyme compared with mandelate racemase and enolase.
    Proc Natl Acad Sci U S A, Vol. 95, No. 18. (1 September 1998), pp. 10396-10401.
    by MS Hasson, I Schlichting, J Moulai, K Taylor, W Barrett, GL Kenyon, PC Babbitt, JA Gerlt, GA Petsko, D Ringe
    posted to comps evolution major-proposal protein by caporaso to the group biomedical-nlp on 2006-08-31 00:42:01 as *****
  • Integration of structural and functional genomics
    Animal Genetics, Vol. 37, No. s1. (2006), pp. 1-6.
    by CK Tuggle, JCM Dekkers, JM Reecy
    posted to comps major-proposal by caporaso to the group biomedical-nlp on 2006-09-11 03:24:58 as ***** along with 1 person and 2 groups dchughes G4ID Genetics-of-Gambling
  • 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 major-proposal sca by caporaso to the group biomedical-nlp on 2006-09-29 23:11:51 as ***** along with 14 people and 4 groups ana barry lna bpb Einat balajis marcius gbart analogAI nirfriedman massivemayhem mingzhi bethbromley ca3295 structural_bioinformatics Bioinformatics BioinfoCIPF SGU-CIPF
  • Clustering of highly homologous sequences to reduce the size of large protein databases.
    Bioinformatics, Vol. 17, No. 3. (March 2001), pp. 282-283.
    by W Li, L Jaroszewski, A Godzik
    posted to clustering comps major-proposal protein sequence by caporaso to the group biomedical-nlp on 2006-09-01 22:00:52 as read along with 1 person Cortel
  • Binding MOAD (Mother Of All Databases).
    Proteins (21 June 2005)
    by Liegi Hu, Mark L L Benson, Richard D D Smith, Michael G G Lerner, Heather A A Carlson
    posted to comps data-mining database drug-design major-proposal pdb protein structural-biology by caporaso to the group biomedical-nlp on 2006-09-10 02:38:19 as ***** along with 6 people and 9 groups BragilMassoud sangeetha shantanu blackbart papatonyhill higueruelo structural_bioinformatics MathBio Biostatistics Bioinformatics microRNA Computational_Systems_Biology EvolutionaryComputation Computational-Neurobiology insilicodrug
  • 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 comps function major-proposal protein by caporaso to the group biomedical-nlp on 2006-09-13 01:54:39 as ***** along with 6 people and 1 group Einat hdopazo ramensky massivemayhem cat_worth lpfernandes structural_bioinformatics
  • The developing art of protein crystallisation: new advances from improved knowledge automation and miniaturisation.
    Prog Biophys Mol Biol, Vol. 88, No. 3. (July 2005), pp. 283-284.
    by TL Blundell
    posted to comps major-proposal structural-biology by caporaso to the group biomedical-nlp on 2006-09-11 03:23:52 as read
  • Automatic extraction of mutations from Medline and cross-validation with OMIM
    Nucl. Acids Res., Vol. 32, No. 1. (2 January 2004), pp. 135-142.
    by Dietrich Rebholz-Schuhmann, Stephane Marcel, Sylvie Albert, Ralf Tolle, Georg Casari, Harald Kirsch
    posted to comps major-proposal mutation nlp protein by caporaso to the group biomedical-nlp on 2006-08-30 19:46:33 as read along with 3 people and 1 group Enro yas t11 T_lab
  • Deleterious mutation prediction in the secondary structure of RNAs
    Nucl. Acids Res., Vol. 31, No. 22. (15 November 2003), pp. 6578-6584.
    by Danny Barash
    posted to comps function major-proposal rna structure by caporaso to the group biomedical-nlp on 2006-09-13 18:50:36 as *****
  • Using information theory to search for co-evolving residues in proteins.
    Bioinformatics, Vol. 21, No. 22. (15 November 2005), pp. 4116-4124.
    by LC Martin, GB Gloor, SD Dunn, LM Wahl
    posted to major-proposal information-theory comps compensatory coevolution bioi7712 by caporaso to the group biomedical-nlp on 2006-11-30 19:02:02 as read along with 4 people bioinfo rabio rsantana cjeans
  • Divergent Evolution Within Protein Superfolds Inferred from Profile-based Phylogenetics
    Journal of Molecular Biology, Vol. 354, No. 3. (2 December 2005), pp. 722-737.
    by Douglas L Theobald, Deborah S Wuttke
    posted to major-proposal by caporaso to the group biomedical-nlp on 2006-09-30 01:52:12 as ***** along with 3 people and 3 groups ana barry dlr structural_bioinformatics Bioinformatics McCammon
  • Natural-like function in artificial WW domains
    Nature, Vol. 437, No. 7058., pp. 579-583.
    by William P Russ, Drew M Lowery, Prashant Mishra, Michael B Yaffe, Rama Ranganathan
    posted to major-proposal sca by caporaso to the group biomedical-nlp on 2006-09-29 23:09:08 as ***** along with 6 people and 4 groups ana barry balajis marcius bethbromley ca3295 structural_bioinformatics Bioinformatics BioinfoCIPF SGU-CIPF
  • Long-Range Structural Effects in a Second-Site Revertant of a Mutant Dihydrofolate Reductase
    PNAS, Vol. 90, No. 24. (15 December 1993), pp. 11753-11756.
    by Ka Brown, Ee Howell, J Kraut
    posted to structure mutation major-proposal compensatory bioi7712 by caporaso to the group biomedical-nlp on 2006-09-29 00:53:59 as *****
  • Statistical and visual morph movie analysis of crystallographic mutant selection bias in protein mutation resource data.
    Proc IEEE Comput Soc Bioinform Conf, Vol. 2 (2003), pp. 180-189.
    by WG Krebs, PE Bourne
    posted to compare comps data-mining major-proposal mutation pdb protein structural-biology by caporaso to the group biomedical-nlp on 2006-09-02 01:18:57 as read
  • Statistically rigorous automated protein annotation.
    Bioinformatics, Vol. 20, No. 7. (1 May 2004), pp. 1066-1073.
    by WG Krebs, PE Bourne
    posted to compare comps function major-proposal mutation protein structural-biology by caporaso to the group biomedical-nlp on 2006-09-02 01:26:20 as *****
  • Restoring allosterism with compensatory mutations in hemoglobin.
    Proc Natl Acad Sci U S A, Vol. 91, No. 24. (22 November 1994), pp. 11547-11551.
    by HW Kim, TJ Shen, DP Sun, NT Ho, M Madrid, MF Tam, M Zou, PF Cottam, C Ho
    posted to compensatory major-proposal mutation structure by caporaso to the group biomedical-nlp on 2006-09-29 00:51:34 as read
  • Finding the fittest fold: using the evolutionary record to design new proteins.
    Cell, Vol. 122, No. 6. (23 September 2005), pp. 832-834.
    by RG Smock, LM Gierasch
    posted to major-proposal sca by caporaso to the group biomedical-nlp on 2006-09-29 23:11:06 as ***** along with 2 people and 2 groups marcius analogAI BioinfoCIPF SGU-CIPF
  • SCORPION2: a database for structure-function analysis of scorpion toxins.
    Toxicon, Vol. 47, No. 3. (March 2006), pp. 356-363.
    by PT Tan, A Veeramani, KN Srinivasan, S Ranganathan, V Brusic
    posted to database function major-proposal protein structural-biology by caporaso to the group biomedical-nlp on 2006-09-11 20:57:00 as ****
  • Evaluation of structural and evolutionary contributions to deleterious mutation prediction.
    J Mol Biol, Vol. 322, No. 4. (27 September 2002), pp. 891-901.
    by CT Saunders, D Baker
    posted to function major-proposal protein by caporaso to the group biomedical-nlp on 2006-09-13 01:55:26 as ***** along with 1 person cckan
  • Effectiveness of correlation analysis in identifying protein residues undergoing correlated evolution.
    Protein Eng, Vol. 10, No. 6. (June 1997), pp. 647-657.
    by DD Pollock, WR Taylor
    posted to coevolution compensatory major-proposal mutation by caporaso to the group biomedical-nlp on 2006-11-08 01:01:53 as ***** along with 1 person friendpine
  • Combinatorial exploration of the catalytic site of a drug-resistant dihydrofolate reductase: creating alternative functional configurations
    Protein Engineering, Design and Selection, Vol. 17, No. 11. (November 2004), pp. 809-819.
    by Andreea R Schmitzer, Francois Lepine, Joelle N Pelletier
    posted to compensatory major-proposal mutation protein by caporaso to the group biomedical-nlp on 2006-09-28 23:50:40 as *****
  • Protein Family Expansions and Biological Complexity
    PLoS Computational Biology, Vol. 2, No. 5. (1 May 2006), e48.
    by Christine Vogel, Cyrus Chothia
    posted to compare comps fold-space major-proposal protein by caporaso to the group biomedical-nlp on 2006-08-23 23:00:11 as **** along with 4 people and 1 group ccots Einat cjeans cmzmasek structural_bioinformatics
  • Protein folds and families: sequence and structure alignments.
    Nucleic Acids Res, Vol. 27, No. 1. (1 January 1999), pp. 244-247.
    by L Holm, C Sander
    posted to comps evolution fold-space major-proposal protein by caporaso to the group biomedical-nlp on 2006-08-23 22:46:55 as ****
  • Comparing genomes in terms of protein structure: surveys of a finite parts list.
    FEMS Microbiol Rev, Vol. 22, No. 4. (October 1998), pp. 277-304.
    by M Gerstein, H Hegyi
    posted to comps evolution major-proposal protein by caporaso to the group biomedical-nlp on 2006-09-23 01:40:45 as *****
  • Coupled two-way clustering analysis of gene microarray data.
    Proc Natl Acad Sci U S A, Vol. 97, No. 22. (24 October 2000), pp. 12079-12084.
    by G Getz, E Levine, E Domany
    posted to clustering major-proposal by caporaso to the group biomedical-nlp on 2006-10-06 17:23:09 as ***** along with 3 people wnpx shikin tvdbulck
  • Characterization of disease-associated single amino acid polymorphisms in terms of sequence and structure properties.
    J Mol Biol, Vol. 315, No. 4. (25 January 2002), pp. 771-786.
    by C Ferrer-Costa, M Orozco, X de la Cruz
    posted to comps function major-proposal by caporaso to the group biomedical-nlp on 2006-09-14 01:23:57 as ***** along with 1 person and 2 groups marcius BioinfoCIPF SGU-CIPF
  • The challenge of documenting mutation across the genome: the human genome variation society approach.
    Hum Mutat, Vol. 23, No. 5. (May 2004), pp. 447-452.
    by O Horaitis, RG Cotton
    posted to comps database major-proposal mutation by caporaso to the group biomedical-nlp on 2006-09-12 18:01:19 as read along with 1 person snuppepuppan
  • Protein structure database search and evolutionary classification.
    Nucleic Acids Res, Vol. 34, No. 13. (2006), pp. 3646-3659.
    by JM Yang, CH Tung
    posted to alignment comps evolution major-proposal protein by caporaso to the group biomedical-nlp on 2006-09-11 03:26:03 as ***** along with 1 person and 1 group waffle168 mgh-lcs
  • Compensated deleterious mutations in insect genomes.
    Science, Vol. 306, No. 5701. (26 November 2004), pp. 1553-1554.
    by RJ Kulathinal, BR Bettencourt, DL Hartl
    posted to mutation major-proposal evolution compensatory bioi7712 by caporaso to the group biomedical-nlp on 2006-09-28 23:57:10 as read along with 2 people LeightonP bpcusack
  • Context dependence and coevolution among amino acid residues in proteins.
    Methods Enzymol, Vol. 395 (2005), pp. 779-790.
    by ZO Wang, DD Pollock
    posted to coevolution major-proposal protein by caporaso to the group biomedical-nlp on 2006-11-08 15:08:49 as *****
  • Why are some human disease-associated mutations fixed in mice?
    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 to the group biomedical-nlp on 2006-11-07 17:29:36 as read along with 1 person bpcusack
  • CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice.
    Nucleic Acids Res, Vol. 22, No. 22. (11 November 1994), pp. 4673-4680.
    by JD Thompson, DG Higgins, TJ Gibson
    posted to alignment comps evolution major-proposal sequence by caporaso to the group biomedical-nlp on 2006-09-19 18:06:21 as ***** along with 23 people jmw greger_halltorp jshapiro mercaptan evaf caldavis miguel onlyrey bjorns aprasad RMGraze moborg arcticrasta dullhunk ahanora Haggan BioNica leelarcombe timflutre adijr xingxu newton1234 Lombardo_7
  • A gold standard set of mechanistically diverse enzyme superfamilies.
    Genome Biol, Vol. 7, No. 1. (2006)
    by SD Brown, JA Gerlt, JL Seffernick, PC Babbitt
    posted to major-proposal by caporaso to the group biomedical-nlp on 2006-09-30 01:42:02 as ***** along with 3 people kuhn robert JeremyZucker
  • Statistical and visual morph movie analysis of crystallographic mutant selection bias in protein mutation resource data.
    J Bioinform Comput Biol, Vol. 2, No. 1. (March 2004), pp. 61-75.
    by WG Krebs, PE Bourne
    posted to compare comps data-mining major-proposal mutation protein structural-biology by caporaso to the group biomedical-nlp on 2006-09-02 01:24:29 as read
  • FlyBase: anatomical data, images and queries.
    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 to the group biomedical-nlp on 2006-11-28 23:20:33 as ** along with 1 person cmor
  • The impact of structural genomics on the protein data bank.
    Am J Pharmacogenomics, Vol. 4, No. 4. (2004), pp. 247-252.
    by HM Berman, JD Westbrook
    posted to comps major-proposal pdb structural-genomics-consortium by caporaso to the group biomedical-nlp on 2006-09-13 01:53:19 as *****
  • Mandelate racemase and muconate lactonizing enzyme are mechanistically distinct and structurally homologous.
    Nature, Vol. 347, No. 6294. (18 October 1990), pp. 692-694.
    by DJ Neidhart, GL Kenyon, JA Gerlt, GA Petsko
    posted to comps evolution major-proposal protein structural-biology by caporaso to the group biomedical-nlp on 2006-08-31 00:43:56 as *****
  • Allosteric determinants in guanine nucleotide-binding proteins.
    Proc Natl Acad Sci U S A, Vol. 100, No. 24. (25 November 2003), pp. 14445-14450.
    by ME Hatley, SW Lockless, SK Gibson, AG Gilman, R Ranganathan
    posted to comps evolution major-proposal by caporaso to the group biomedical-nlp on 2006-09-14 22:34:07 as ***** along with 4 people and 4 groups barry lna Einat marcius structural_bioinformatics Bioinformatics BioinfoCIPF SGU-CIPF
  • Enzymes with extra talents: moonlighting functions and catalytic promiscuity.
    Curr Opin Chem Biol, Vol. 7, No. 2. (April 2003), pp. 265-272.
    by SD Copley
    posted to evolution function major-proposal protein by caporaso to the group biomedical-nlp on 2006-09-30 01:36:51 as read along with 1 person i41m
  • Multiple sequence alignment
    Current Opinion in Structural Biology, Vol. 16, No. 3. (June 2006), pp. 368-373.
    by Robert C Edgar, Serafim Batzoglou
    posted to alignment comps evolution major-proposal sequence by caporaso to the group biomedical-nlp on 2006-09-19 18:03:29 as ***** along with 6 people CharlesM rabio cjeans mingzhi edvin nklee
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