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ezralanglois's library [71 articles]

Recent papers added to ezralanglois's library.
  • A novel DNA-binding motif in MarA: the first structure for an AraC family transcriptional activator.
    Proc Natl Acad Sci U S A, Vol. 95, No. 18. (1 September 1998), pp. 10413-10418.
    by S Rhee, RG Martin, JL Rosner, DR Davies
    posted to proteindna07 by ezralanglois on 2007-05-25 16:54:35 as read along with 1 person and 2 groups marcius BioinfoCIPF SGU-CIPF
  • Identifying DNA-binding proteins using structural motifs and the electrostatic potential.
    Nucleic Acids Res, Vol. 32, No. 16. (2004), pp. 4732-4741.
    by HP Shanahan, MA Garcia, S Jones, JM Thornton
    posted to proteindna07 by ezralanglois on 2007-05-25 16:47:36 as read along with 3 people kaarsinogen sriram_s medic0747
  • DNA binding sites: representation and discovery.
    Bioinformatics, Vol. 16, No. 1. (January 2000), pp. 16-23.
    by GD Stormo
    posted to proteindna07 by ezralanglois on 2007-05-25 16:44:48 as read along with 5 people kaarsinogen mbj dquest lusk xili03
  • PISCES: a protein sequence culling server.
    Bioinformatics, Vol. 19, No. 12. (12 August 2003), pp. 1589-1591.
    by G Wang, RL Dunbrack
    posted to proteindna07 by ezralanglois on 2007-05-25 15:52:15 as read along with 8 people and 2 groups barry aalibes kaarsinogen j3xucite dgront blackbart mloewer chgjb structural_bioinformatics Bioinformatics
  • Data Mining: Practical Machine Learning Tools and Techniques, Second Edition (Morgan Kaufmann Series in Data Management Systems)
    (08 June 2005)
    by Ian H Witten, Eibe Frank
    posted to no-tag by ezralanglois on 2007-05-25 06:52:38 as read along with 25 people and 5 groups akastrin eegilbert napvasconcelos soramame_0518 quianominorleo abellogin sb-3000 sammydre balicea sdvillal caporaso AbnerCYH brunomelo dejang mdifranc BastianSpanneberg velasco azazello pprett gmonce fernandohbc scorreia_pro csacca jdu bobychan WAND AI biomedical-nlp RiSE CSBBGraphTheory
  • ANN-Spec: a method for discovering transcription factor binding sites with improved specificity.
    Pac Symp Biocomput (2000), pp. 467-478.
    by CT Workman, GD Stormo
    posted to proteindna07 by ezralanglois on 2007-05-25 06:49:55 as read along with 1 person dquest
  • Predicting DNA-binding sites of proteins from amino acid sequence.
    BMC Bioinformatics, Vol. 7 (2006)
    by C Yan, M Terribilini, F Wu, RL Jernigan, D Dobbs, V Honavar
    posted to proteindna07 by ezralanglois on 2007-05-25 06:47:47 as read along with 3 people kaarsinogen ameetsoni dandaman
  • Crystal structure of the site-specific recombinase [gamma][delta] resolvase complexed with a 34 by cleavage site
    Cell, Vol. 82, No. 2. (1995), pp. 193-207.
    by Wei Yang, Thomas A Steitz
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:04 as read
  • Sequence Context Influencing Cleavage Activity of the K130E Mutant of the Restriction Endonuclease EcoRI Identified by a Site Selection Assay
    Biochemistry, Vol. 36, No. 31. (1997), pp. 9478-9485.
    by S Windolph, A Fritz, T Oelgeschlager, H Wolfes, J Alves
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:04 as read
  • Structure of the metal-ion-activated diphtheria toxin repressor/ tox operator complex
    Nature, Vol. 394, No. 6692. (1998), pp. 502-506.
    by Andre White, Xiaochun Ding, Johanna C Vanderspek, John R Murphy, Dagmar Ringe
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:04 as read
  • Structure of the multimodular endonuclease FokI bound to DNA
    Nature, Vol. 388, No. 6637. (1997), pp. 97-100.
    by David A Wah, Joel A Hirsch, Lydia F Dorner, Ira Schildkraut, Aneel K Aggarwal
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:04 as read
  • GENOMICS: Shotgun Sequencing of the Human Genome
    Science, Vol. 280, No. 5369. (1998), pp. 1540-1542.
    by Craig J Venter, Mark D Adams, Granger G Sutton, Anthony R Kerlavage, Hamilton O Smith, Michael Hunkapiller
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:04 as read
  • Atomic model of a pyrimidine dimer excision repair enzyme complexed with a dna substrate: Structural basis for damaged DNA recognition
    Cell, Vol. 83, No. 5. (1995), pp. 773-782.
    by Dmitry G Vassylyev, Tatsuki Kashiwagi, Yuriko Mikami, Mariko Ariyoshi, Shigenori Iwai, Eiko Ohtsuka, Kosuke Morikawa
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:04 as read
  • Recognition of a TG Mismatch: The Crystal Structure of Very Short Patch Repair Endonuclease in Complex with a DNA Duplex
    Cell, Vol. 99, No. 6. (1999), pp. 615-623.
    by Susan E Tsutakawa, Hisato Jingami, Kosuke Morikawa
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:04 as read
  • Structural basis of preinitiation complex assembly on human Pol II promoters
    The EMBO Journal, Vol. 19 (2000), pp. 25-36.
    by Francis TF Tsai, Paul B Sigler
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:04 as read
  • Efficient Prediction of Nucleic Acid Binding Function from Low-resolution Protein Structures
    Journal of Molecular Biology, Vol. 358, No. 3. (2006)
    by Andras Szilagyi, Jeffrey Skolnick
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:04 as read
  • Computer Methods for Analyzing Sequence Recognition of Nucleic Acids
    Annual Review of Biophysics and Biophysical Chemistry, Vol. 17, No. 1. (1988), pp. 241-263.
    by GD Stormo
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:04 as read
  • Improved Boosting Algorithms Using Confidence-rated Predictions
    Machine Learning, Vol. 37, No. 3. (1999), pp. 297-336.
    by Robert E Schapire, Yoram Singer
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:04 as read
  • Improved Use of Continuous Attributes in C4.5.
    J. Artif. Intell. Res. (JAIR), Vol. 4 (1996), pp. 77-90.
    by Ross J Quinlan
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Induction of Decision Trees
    Machine Learning (1986), pp. 81-106.
    by Ross J Quinlan
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Probabilistic Outputs for Support Vector Machines and Comparisons to Regularized Likelihood Methods
    (1999), pp. 61-74.
    by John C Platt
    edited by Peter J Bartlett, Bernhard Schölkopf, Dale Schuurmans, Alex J Smola
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Structure and function of type II restriction endonucleases
    Vol. 29, No. 18. (September JanuaryMay, February00January 2001), pp. 3705-3727.
    by Alfred Pingoud, Albert Jeltsch
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Type II restriction endonucleases: structure and mechanism
    Cellular and Molecular Life Sciences (CMLS), Vol. 62, No. 6. (2005), pp. 685-707.
    by A Pingoud, M Fuxreiter, V Pingoud, W Wende
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Catalytic and DNA Binding Properties of PvuII Restriction Endonuclease Mutants
    The Journal of Biological Chemistry, Vol. 272, No. 41. (1997), pp. 25761-25767.
    by Horacio G Nastri, Paul D Evans, Iris H Walker, Paul D Riggs
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Recognition and Cleavage of DNA by Type-II Restriction Endonucleases
    European Journal of Biochemistry, Vol. 246, No. 1. (1997), pp. 1-22.
    by Alfred Pingoud, Albert Jeltsch
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Detecting DNA-binding helix-turn-helix structural motifs using sequence and structure information
    Nucleic Acids Research, Vol. 33, No. 7. (2005), pp. 2129-2140.
    by Marialuisa P Calace, Janet M Thornton
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Probabilistic Reasoning in Intelligent Systems
    (1988)
    by J Pearl
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • DNA Damage Recognition by XPA Protein Promotes Efficient Recruitment of Transcription Factor II H
    Vol. 272, No. 37. (1997), pp. 22991-22994.
    by Silvano Nocentini, Frederic Coin, Masafumi Saijo, Kiyoji Tanaka, Jean M Egly
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Structure of Bam HI endonuclease bound to DNA: partial folding and unfolding on DNA binding
    Vol. 269, No. 5224. (August April, JanuarySeptemberSeptemberMay 1995), pp. 656-663.
    by M Newman, T Strzelecka, LF Dorner, I Schildkraut, AK Aggarwal
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Crystal structure of restriction endonuclease BglI bound to its interrupted DNA recognition sequence
    The EMBO Journal, Vol. 17 (1998), pp. 5466-5476.
    by Matthew Newman, Keith Lunnen, Geoffrey Wilson, John Greci, Ira Schildkraut, Simon EV Phillips
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • The phage 434 Cro/OR1 complex at 2.5 A resolution
    Journal of Molecular Biology, Vol. 219, No. 2. (1991), pp. 321-334.
    by A Mondragon, SC Harrison
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Predicting genetic regulatory response using classification
    Bioinformatics, Vol. 20, No. s1. (2004), pp. i232-240.
    by Manuel Middendorf, Anshul Kundaje, Chris Wiggins, Yoav Freund, Christina Leslie
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Understanding the immutability of restriction enzymes: crystal structure of BglII and its DNA substrate at 1.5 A resolution
    Nat Struct Mol Biol, Vol. 7, No. 2. (2000), pp. 134-140.
    by Christine M Lukacs, Rebecca Kucera, Ira Schildkraut, Aneel K Aggarwal
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Learning to Translate Sequence and Structure to Function: Identifying DNA Binding and Membrane Binding Proteins
    Annals of Biomedical Engineering, Vol. 36, No. 6. (June 2007)
    by Robert E Langlois, Matthew B Carson, Nitin Bhardwaj, Hui Lu
    posted to ezralanglois proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • DNase I-induced DNA conformation : 2 A Structure of a DNase I-octamer complex
    Journal of Molecular Biology, Vol. 222, No. 3. (1991), pp. 645-667.
    by Armin Lahm, Dietrich Suck
    posted to proteindna07 by ezralanglois on 2007-05-25 06:31:03 as read
  • Using evolutionary and structural information to predict DNA-binding sites on DNA-binding proteins
    Proteins: Structure, Function, and Bioinformatics, Vol. 64, No. 1. (2006), pp. 19-27.
    by Igor B Kuznetsov, Zhenkun Gou, Run Li, Seungwoo Hwang
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • On the Boosting Ability of Top-Down Decision Tree Learning Algorithms
    (1996)
    by Michael Kearns, Yishay Mansour
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • DNA Recognition and Cleavage by the LAGLIDADG Homing Endonuclease I-Cre I
    Molecular Cell, Vol. 2, No. 4. (1998), pp. 469-476.
    by Melissa S Jurica, Raymond J Monnat, Barry L Stoddard
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • Using electrostatic potentials to predict DNA-binding sites on DNA-binding proteins
    Nucleic Acids Research, Vol. 31, No. 24. (2003), pp. 7189-7198.
    by Susan Jones, Hugh P Shanahan, Helen M Berman, Janet M Thornton
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • VMD -- Visual Molecular Dynamics
    Journal of Molecular Graphics, Vol. 14 (1996), pp. 33-38.
    by William Humphrey, Andrew Dalke, Klaus Schulten
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • Structure of the DNA Repair Enzyme Endonuclease IV and Its DNA Complex: Double-Nucleotide Flipping at Abasic Sites and Three-Metal-Ion Catalysis
    Cell, Vol. 98, No. 3. (1999), pp. 397-408.
    by David J Hosfield, Yue Guan, Brian J Haas, Richard P Cunningham, John A Tainer
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • Inhibition of EcoRV Endonuclease by Deoxyribo-3'-S-phosphorothiolates: A High-Resolution X-ray Crystallographic Study
    Vol. 122, No. 14. (2000), pp. 3314-3324.
    by NC Horton, BA Connolly, JJ Perona
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • Note on free lunches and cross-validation
    Neural Computation, Vol. 9, No. 6. (1997), pp. 1211-1215.
    by Cyril Goutte
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • Using Bayesian Networks to Analyze Expression Data
    Journal of Computational Biology, Vol. 7, No. 3-4. (2000), pp. 601-620.
    by Nir Friedman, Michal Linial, Iftach Nachman, Dana Pe'er
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • Additive Logistic Regression: a Statistical View of Boosting
    (July FebruaryMarch, JanuarySeptemberSeptemberAugust 1998)
    by Jerome Friedman, Trevor Hastie, Robert Tibshirani
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • Experiments with a new boosting algorithm
    (1996)
    by Yoav Freund, Robert E Schapire
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • The Alternating Decision Tree Learning Algorithm
    (1999)
    by Yoav Freund, Llew Mason
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • Molecular and Genetic Analysis of the Toxic Effect of RAP1 Overexpression in Yeast
    Genetics, Vol. 141, No. 4. (1995), pp. 1253-1262.
    by K Freeman, M Gwadz, D Shore
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • DNA binding and cleavage by the nuclear intron-encoded homing endonuclease I-PpoI
    Nature, Vol. 394, No. 6688. (1998), pp. 96-101.
    by Karen E Flick, Melissa S Jurica, Raymond J Monnat, Barry L Stoddard
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
  • Hin recombinase bound to DNA: the origin of specificity in major and minor groove interactions
    Vol. 263, No. 5145. (January FebruaryJanuary, JanuarySeptemberSeptemberApril 1994), pp. 348-355.
    by JA Feng, RC Johnson, RE Dickerson
    posted to bibtex-import by ezralanglois on 2007-05-25 06:31:03 as read
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