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aalibes protein_dna [30 articles]

Recent papers added to aalibes library classified by the tag protein_dna. You can also see everyone's protein_dna.
  • Insights into Protein–DNA Interactions through Structure Network Analysis
    PLoS Comput Biol, Vol. 4, No. 9. (2008), e1000170.
    by R Sathyapriya, MS Vijayabaskar, Saraswathi Vishveshwara
    posted to protein_dna by aalibes on 2008-09-10 15:03:07 as ** along with 7 people and 1 group Zephyrus Ema emptyhb AbnerCYH Totobox zwang hmk Roswell Cancer Crosstalk
  • Structural Basis for DNA Recognition by FoxO1 and Its Regulation by Posttranslational Modification
    Structure, Vol. 16, No. 9. (10 September 2008), pp. 1407-1416.
    by Michael M Brent, Ruchi Anand, Ronen Marmorstein
    posted to protein_dna by aalibes on 2008-09-10 14:53:07 as ** along with 1 person jyuh
  • Visualizing one-dimensional diffusion of proteins along DNA
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (05 August 2008), pp. 768-774.
    by Jason Gorman, Eric C Greene
    posted to protein_dna by aalibes on 2008-08-29 15:33:27 as **
  • A Feature-Based Approach to Modeling Protein–DNA Interactions
    PLoS Comput Biol, Vol. 4, No. 8. (2008), e1000154.
    by Eilon Sharon, Shai Lubliner, Eran Segal
    posted to protein_dna transcription_factors by aalibes on 2008-08-28 15:51:00 as ** along with 4 people dakelley Stew emptyhb zwang
  • Principles of protein-DNA recognition revealed in the structural analysis of Ndt80-MSE DNA complexes.
    Structure (London, England : 1993), Vol. 14, No. 3. (March 2006), pp. 555-565.
    by JS Lamoureux, JN Glover
    posted to protein_dna by aalibes on 2008-07-29 12:22:00 as **
  • Design of Compact, Universal DNA Microarrays for Protein Binding Microarray Experiments.
    Journal of computational biology : a journal of computational molecular cell biology (23 July 2008)
    by Anthony A A Philippakis, Aaron M M Qureshi, Michael F F Berger, Martha L L Bulyk
    posted to protein_dna by aalibes on 2008-07-28 10:13:49 as ** along with 1 person jyuh
  • Probing potential binding modes of the p53 tetramer to DNA based on the symmetries encoded in p53 response elements.
    Nucleic Acids Res (5 November 2007)
    by Buyong Ma, Arnold J J Levine
    posted to cancer p53 protein_dna by aalibes on 2008-07-25 11:34:04 as ** along with 1 person oelemento
  • Weight matrices for protein-DNA binding sites from a single co-crystal structure.
    Physical review. E, Statistical, nonlinear, and soft matter physics, Vol. 73, No. 6 Pt 1. (June 2006)
    by RG Endres, NS Wingreen
    posted to protein_dna by aalibes on 2008-07-24 16:01:11 as **
  • Protein-DNA recognition patterns and predictions.
    Annu Rev Biophys Biomol Struct, Vol. 34 (2005), pp. 379-398.
    by A Sarai, H Kono
    posted to protein_dna by aalibes on 2008-07-24 15:43:07 as ** along with 2 people ramensky medic0747
  • Ab initio prediction of transcription factor binding sites.
    Pac Symp Biocomput (2007), pp. 484-495.
    by LA Liu, JS Bader
    posted to protein_dna by aalibes on 2008-07-24 15:42:21 as ** along with 1 person idonaldson
  • Three-dimensional intricacies in protein-DNA recognition and transcriptional control
    Nature Structural & Molecular Biology, Vol. 14, No. 12., pp. 1118-1119.
    by Stephen C Harrison
    posted to protein_dna by aalibes on 2008-07-24 15:40:19 as **
  • Protein-DNA binding specificity predictions with structural models
    Nucleic Acids Research, Vol. 33, No. 18. (2005), pp. 5781-5798.
    by Alexandre V Morozov, James J Havranek, David Baker, Eric D Siggia
    posted to protein_dna by aalibes on 2008-07-10 14:03:15 as ** along with 1 person medic0747
  • Spatial effects on the speed and reliability of protein-DNA search
    Nucl. Acids Res., Vol. 36, No. 11. (1 June 2008), pp. 3570-3578.
    by Zeba Wunderlich, Leonid A Mirny
    posted to protein_dna by aalibes on 2008-06-26 10:48:26 as **
  • DBD-Hunter: a knowledge-based method for the prediction of DNA-protein interactions
    Nucl. Acids Res. (31 May 2008), gkn332.
    by Mu Gao, Jeffrey Skolnick
    posted to protein_dna by aalibes on 2008-06-02 11:25:11 as ** along with 3 people aramesh2 reyez suffer3
  • Protein-nucleic acid complexes: large, small, old, and new
    Current Opinion in Structural Biology, Vol. 18, No. 1. (February 2008), pp. 67-69.
    by Gregory D Van Duyne, Wei Yang
    posted to protein_dna by aalibes on 2008-02-20 15:13:46 as **
  • Structural and Thermodynamic Basis for Enhanced DNA Binding by a Promiscuous Mutant EcoRI Endonuclease.
    Structure, Vol. 15, No. 11. (November 2007), pp. 1368-1382.
    by PJ Sapienza, JM Rosenberg, L Jen-Jacobson
    posted to protein_dna by aalibes on 2007-11-14 11:41:16 as **
  • Prediction of DNA-binding residues from sequence
    Bioinformatics, Vol. 23, No. 13. (1 July 2007), pp. i347-353.
    by Yanay Ofran, Venkatesh Mysore, Burkhard Rost
    posted to protein_dna by aalibes on 2007-07-24 09:25:52 as ** along with 3 people kaarsinogen GustavoLacerda chrn
  • Genome-Wide Mapping of in Vivo Protein-DNA Interactions
    Science (31 May 2007), 1141319.
    by David S Johnson, Ali Mortazavi, Richard M Myers, Barbara Wold
    posted to protein_dna transcription_factors by aalibes on 2007-06-08 12:10:09 as ** along with 19 people and 5 groups jo_davies balicea andersbj JeremyZucker aswin kengg giovanni cjeans ghattem zwang epigenetics biomcgary george_g cabbagezs Jporci blobbybirdman caseybrown emptyhb dquest Bioinformatics microRNA Marcotte_Lab UH - Computational Biology Myxo group
  • DNA Familial Binding Profiles Made Easy: Comparison of Various Motif Alignment and Clustering Strategies
    PLoS Computational Biology, Vol. 3, No. 3. (1 March 2007), e61.
    by Shaun Mahony, Philip E Auron, Panayiotis V Benos
    posted to protein_dna by aalibes on 2007-05-25 09:12:22 as ** along with 4 people zwang nklee heliopais pradiptaray
  • Connecting protein structure with predictions of regulatory sites.
    Proc Natl Acad Sci U S A (16 April 2007)
    by Alexandre V V Morozov, Eric D D Siggia
    posted to protein_dna transcription_factors by aalibes on 2007-05-17 15:09:20 as ** along with 4 people and 2 groups ana kaarsinogen johncumbers lusk structural_bioinformatics Bioinformatics
  • Binding Site Graphs: A New Graph Theoretical Framework for Prediction of Transcription Factor Binding Sites
    PLoS Computational Biology, Vol. 3, No. 5. (1 May 2007), e90.
    by Timothy E Reddy, Charles Delisi, Boris E Shakhnovich
    posted to protein_dna transcription_factors by aalibes on 2007-05-11 15:57:47 as ** along with 5 people and 1 group dpollard medic0747 GustavoLacerda mircea marti EisenLab
  • Structure-based prediction of C2H2 zinc-finger binding specificity: sensitivity to docking geometry.
    Nucleic Acids Res (30 January 2007)
    by Trevor W W Siggers, Barry Honig
    posted to protein_dna zinc_fingers by aalibes on 2007-04-25 09:33:12 as ** along with 1 person and 1 group dpollard EisenLab
  • Energetics of the protein-DNA-water interaction
    BMC Structural Biology, Vol. 7 (10 January 2007), 4.
    by Francesca Spyrakis, Pietro Cozzini, Chiara Bertoli, Anna Marabotti, Glen E Kellogg, Andrea Mozzarelli
    posted to protein_dna by aalibes on 2007-03-06 14:34:28 as ** along with 3 people medic0747 Ema jjray
  • Flexible DNA Target Site Recognition by Divergent Homing Endonuclease Isoschizomers I-CreI and I-MsoI
    Journal of Molecular Biology, Vol. 329, No. 2. (30 May 2003), pp. 253-269.
    by Brett Chevalier, Monique Turmel, Claude Lemieux, Raymond J Monnat, Barry L Stoddard
    posted to protein_dna by aalibes on 2007-02-15 17:20:34 as ** along with 1 person Bobbi
  • Protein-nucleic acid recognition: statistical analysis of atomic interactions and influence of DNA structure.
    Proteins, Vol. 61, No. 2. (1 November 2005), pp. 258-271.
    by D Lejeune, N Delsaux, B Charloteaux, A Thomas, R Brasseur
    posted to protein_dna by aalibes on 2007-02-15 13:48:09 as ** along with 1 person medic0747
  • Precise physical models of protein-DNA interaction from high-throughput data
    PNAS, Vol. 104, No. 2. (9 January 2007), pp. 501-506.
    by Justin B Kinney, Gasper Tkacik, Curtis G Callan
    posted to protein_dna by aalibes on 2007-01-10 08:58:54 as ** along with 2 people zwang emptyhb
  • What Drives Proteins into the Major or Minor Grooves of DNA?
    Journal of Molecular Biology, Vol. 365, No. 1. (5 January 2007), pp. 1-9.
    by Peter L Privalov, Anatoly I Dragan, Colyn Crane-Robinson, Kenneth J Breslauer, David P Remeta, Conceicao A Minetti
    posted to protein_dna by aalibes on 2006-12-01 11:58:15 as **
  • An all-atom, distance-dependent scoring function for the prediction of protein-DNA interactions from structure.
    Proteins (31 October 2006)
    by Timothy A A Robertson, Gabriele Varani
    posted to protein_dna by aalibes on 2006-11-07 09:07:25 as **
  • ProTherm and ProNIT: thermodynamic databases for proteins and protein-nucleic acid interactions.
    Nucleic Acids Res, Vol. 34, No. Database issue. (1 January 2006)
    by MD Kumar, KA Bava, MM Gromiha, P Prabakaran, K Kitajima, H Uedaira, A Sarai
    posted to protein_dna by aalibes on 2006-10-16 10:58:51 as ** along with 3 people and 1 group massivemayhem cat_worth gisle structural_bioinformatics
  • A simple physical model for the prediction and design of protein-DNA interactions.
    J Mol Biol, Vol. 344, No. 1. (12 November 2004), pp. 59-70.
    by JJ Havranek, CM Duarte, D Baker
    posted to protein_dna by aalibes on 2006-10-11 14:03:42 as ** along with 2 people kaarsinogen medic0747
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