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wilsoros's library [53 articles]

最近录入 wilsoros's 文献库.
  • The effect of intrinsic curvature on conformational properties of circular DNA
    Biophys. J., Vol. 72, No. 3. (1 March 1997), pp. 1070-1079.
    by V Katritch, A Vologodskii
    posted to no-tag by wilsoros on 2006-11-14 19:07:03 as **
  • Catabolite activator protein-induced DNA bending in transcription initiation.
    J Mol Biol, Vol. 219, No. 2. (20 May 1991), pp. 201-215.
    by SS Zinkel, DM Crothers
    posted to no-tag by wilsoros on 2006-11-08 21:56:00 as **
  • Determination of the DNA bend angle induced by the restriction endonuclease EcoRV in the presence of Mg2+.
    J Biol Chem, Vol. 268, No. 12. (25 April 1993), pp. 8645-8650.
    by T Stöver, E Köhler, U Fagin, W Wende, H Wolfes, A Pingoud
    posted to no-tag by wilsoros on 2006-11-08 21:52:43 as **
  • Thermodynamics "beyond" local equilibrium.
    Proc Natl Acad Sci U S A, Vol. 98, No. 20. (25 September 2001), pp. 11081-11084.
    by JM Vilar, JM Rubi
    posted to no-tag by wilsoros on 2006-11-08 21:46:31 as ** along with 1 person kentsis
  • Modeling network dynamics: the lac operon, a case study.
    J Cell Biol, Vol. 161, No. 3. (12 May 2003), pp. 471-476.
    by JM Vilar, CC Guet, S Leibler
    posted to no-tag by wilsoros on 2006-11-08 21:44:19 as ** along with 7 people and 2 groups rklancer jstajic jjray bayesian balicea johncumbers carmaus dIEMoSIRIS MoSi-Rostock
  • DNA looping and physical constraints on transcription regulation.
    J Mol Biol, Vol. 331, No. 5. (29 August 2003), pp. 981-989.
    by JM Vilar, S Leibler
    posted to no-tag by wilsoros on 2006-11-08 21:38:37 as ** along with 1 person jstajic
  • DNA looping in gene regulation: from the assembly of macromolecular complexes to the control of transcriptional noise.
    Curr Opin Genet Dev, Vol. 15, No. 2. (April 2005), pp. 136-144.
    by JM Vilar, L Saiz
    posted to no-tag by wilsoros on 2006-11-08 21:35:26 as **
  • DNA looping: the consequences and its control.
    Curr Opin Struct Biol, Vol. 16, No. 3. (June 2006), pp. 344-350.
    by L Saiz, JM Vilar
    posted to no-tag by wilsoros on 2006-11-08 21:28:16 as **
  • Stochastic dynamics of macromolecular-assembly networks.
    Mol Syst Biol, Vol. 2 (2006)
    by L Saiz, JM Vilar
    posted to no-tag by wilsoros on 2006-11-08 21:26:10 as ** along with 1 person phoenixzxl
  • Multiprotein DNA looping.
    Phys Rev Lett, Vol. 96, No. 23. (16 June 2006)
    by JM Vilar, L Saiz
    posted to no-tag by wilsoros on 2006-11-08 21:24:11 as **
  • High-throughput approach for detection of DNA bending and flexibility based on cyclization.
    Proc Natl Acad Sci U S A, Vol. 100, No. 6. (18 March 2003), pp. 3161-3166.
    by Y Zhang, DM Crothers
    posted to no-tag by wilsoros on 2006-11-08 21:21:53 as **
  • Statistical mechanics of sequence-dependent circular DNA and its application for DNA cyclization.
    Biophys J, Vol. 84, No. 1. (January 2003), pp. 136-153.
    by Y Zhang, DM Crothers
    posted to no-tag by wilsoros on 2006-11-08 21:20:50 as **
  • Nematic textures in spherical shells.
    Phys Rev E Stat Nonlin Soft Matter Phys, Vol. 74, No. 2 Pt 1. (August 2006)
    by V Vitelli, DR Nelson
    posted to no-tag by wilsoros on 2006-11-08 20:51:51 as **
  • Pause point spectra in DNA constant-force unzipping.
    Biophys J, Vol. 88, No. 4. (April 2005), pp. 2752-2765.
    by JD Weeks, JB Lucks, Y Kafri, C Danilowicz, DR Nelson, M Prentiss
    posted to no-tag by wilsoros on 2006-11-08 20:50:00 as **
  • Molecular mechanisms of cellular mechanics.
    Phys Chem Chem Phys, Vol. 8, No. 32. (28 August 2006), pp. 3692-3706.
    by M Gao, M Sotomayor, E Villa, EH Lee, K Schulten
    posted to no-tag by wilsoros on 2006-11-08 20:43:09 as ** along with 1 person choonpeng
  • Scalable molecular dynamics with NAMD.
    J Comput Chem, Vol. 26, No. 16. (December 2005), pp. 1781-1802.
    by JC Phillips, R Braun, W Wang, J Gumbart, E Tajkhorshid, E Villa, C Chipot, RD Skeel, L Kalé, K Schulten
    posted to no-tag by wilsoros on 2006-11-08 20:41:54 as ** along with 10 people and 5 groups vahmurk gisle dimka jwm ttjoseph sangeetha yoel_rf bilab sobolevnrm ibuch Radiation_Damage Stressosome Bioinformatics insilicodrug baker-group
  • Structural dynamics of the lac repressor-DNA complex revealed by a multiscale simulation.
    Proc Natl Acad Sci U S A, Vol. 102, No. 19. (10 May 2005), pp. 6783-6788.
    by E Villa, A Balaeff, K Schulten
    posted to no-tag by wilsoros on 2006-11-08 20:41:10 as **
  • Methods for analyzing DNA bending.
    Methods Mol Biol, Vol. 94 (1999), pp. 109-123.
    by JD Kahn
    posted to no-tag by wilsoros on 2006-11-08 20:37:18 as **
  • Bacterial repression loops require enhanced DNA flexibility.
    J Mol Biol, Vol. 349, No. 4. (17 June 2005), pp. 716-730.
    by NA Becker, JD Kahn, LJ Maher
    posted to no-tag by wilsoros on 2006-11-08 20:36:02 as **
  • Position-dependent effects of locked nucleic acid (LNA) on DNA sequencing and PCR primers.
    Nucleic Acids Res (2 November 2006)
    by Joshua D D Levin, Dean Fiala, Meinrado F F Samala, Jason D D Kahn, Raymond J J Peterson
    posted to no-tag by wilsoros on 2006-11-08 20:29:00 as **
  • Three-dimensional vibration analysis of a torus with circular cross section
    The Journal of the Acoustical Society of America, Vol. 112, No. 6. (2002), pp. 2831-2839.
    by D Zhou, FTK Au, SH Lo, YK Cheung
    posted to no-tag by wilsoros on 2006-10-30 21:39:36 as **
  • Exact Solutions for Out-of-Plane Vibration of Curved Nonuniform Beams
    Journal of Applied Mechanics, Vol. 68, No. 2. (2001), pp. 186-191.
    by SY Lee, JC Chao
    posted to beams by wilsoros on 2006-10-30 21:24:17 as **
  • Tension-dependent DNA cleavage by restriction endonucleases: Two-site enzymes are "switched off" at low force
    PNAS, Vol. 103, No. 31. (1 August 2006), pp. 11555-11560.
    by Gregory J Gemmen, Rachel Millin, Douglas E Smith
    posted to dna tension by wilsoros on 2006-10-26 22:57:27 as **
  • Calculation of the persistence length of a flexible polymer chain with short-range self-repulsion
    The European Physical Journal E - Soft Matter, Vol. V13, No. 3. (1 March 2004), pp. 225-237.
    by L Schã¤fer, K Elsner
    posted to length persistence range repulsion self short by wilsoros on 2006-10-19 00:58:49 as **
  • Variational theory for a single polyelectrolyte chain revisited
    The European Physical Journal E - Soft Matter, Vol. V14, No. 1. (1 May 2004), pp. 67-77.
    by M Manghi, RR Netz
    posted to electrostatics length persistence by wilsoros on 2006-10-19 00:58:20 as **
  • Helical phasing between DNA bends and the determination of bend direction.
    Nucleic Acids Res, Vol. 15, No. 23. (10 December 1987), pp. 9771-9779.
    by JJ Salvo, ND Grindley
    posted to no-tag by wilsoros on 2006-10-19 00:28:10 as **
  • DNA bend direction by phase sensitive detection.
    Nature, Vol. 328, No. 6126. (5 1987), pp. 178-181.
    by SS Zinkel, DM Crothers
    posted to camp repression by wilsoros on 2006-10-19 00:25:57 as **
  • Calculation of the persistence length of a flexible polymer chain with short-range self-repulsion.
    Eur Phys J E Soft Matter, Vol. 13, No. 3. (March 2004), pp. 225-237.
    by L Schäfer, K Elsner
    posted to length persistence by wilsoros on 2006-10-18 06:40:44 as **
  • Comparative gel electrophoresis measurement of the DNA bend angle induced by the catabolite activator protein.
    Biopolymers, Vol. 29, No. 1. (January 1990), pp. 29-38.
    by SS Zinkel, DM Crothers
    posted to atract camp repression by wilsoros on 2006-10-18 06:26:24 as **
  • Binding of the cyclic AMP receptor protein of Escherichia coli and DNA bending at the P4 promoter of pBR322.
    Biochem J, Vol. 285 ( Pt 1) (1 July 1992), pp. 91-97.
    by I Brierley, JG Hoggett
    posted to camp repression by wilsoros on 2006-10-18 06:24:59 as **
  • Analysis of the spacer DNA between the cyclic AMP receptor protein binding site and the lac promoter.
    J Bacteriol, Vol. 178, No. 8. (April 1996), pp. 2436-2439.
    by U Flatow, GV Rajendrakumar, S Garges
    posted to camp repression by wilsoros on 2006-10-18 06:22:55 as **
  • Single-molecule spectroscopic determination of lac repressor-DNA loop conformation.
    Biophys J, Vol. 89, No. 4. (October 2005), pp. 2588-2596.
    by MA Morgan, K Okamoto, JD Kahn, DS English
    posted to kahn by wilsoros on 2006-10-04 04:47:13 as **
  • Diffusion-Limited Aggregation, a Kinetic Critical Phenomenon
    Physical Review Letters, Vol. 47, No. 19. (November 1981), 1400.
    by TA Witten, LM Sander
    posted to cited len lots sander by wilsoros on 2006-09-18 22:15:45 as ** along with 1 person maburkitt
  • DNA flexibility studied by covalent closure of short fragments into circles.
    Proc Natl Acad Sci U S A, Vol. 78, No. 8. (August 1981), pp. 4833-4837.
    by D Shore, J Langowski, RL Baldwin
    posted to dna frags by wilsoros on 2006-09-18 19:30:11 as **
  • DNA-binding domains of Fos and Jun do not induce DNA curvature: an investigation with solution and gel methods.
    Proc Natl Acad Sci U S A, Vol. 95, No. 4. (17 February 1998), pp. 1404-1409.
    by A Sitlani, DM Crothers
    posted to dna modeling by wilsoros on 2006-09-18 19:24:31 as **
  • Molecular dynamics simulations of the 136 unique tetranucleotide sequences of DNA oligonucleotides. II: sequence context effects on the dynamical structures of the 10 unique dinucleotide steps.
    Biophys J, Vol. 89, No. 6. (December 2005), pp. 3721-3740.
    by SB Dixit, DL Beveridge, DA Case, TE Cheatham, E Giudice, F Lankas, R Lavery, JH Maddocks, R Osman, H Sklenar, KM Thayer, P Varnai
    posted to dna modeling molecular stiffness by wilsoros on 2006-09-18 19:21:30 as **
  • Molecular dynamics simulations of the 136 unique tetranucleotide sequences of DNA oligonucleotides. I. Research design and results on d(CpG) steps.
    Biophys J, Vol. 87, No. 6. (December 2004), pp. 3799-3813.
    by DL Beveridge, G Barreiro, KS Byun, DA Case, TE Cheatham, SB Dixit, E Giudice, F Lankas, R Lavery, JH Maddocks, R Osman, E Seibert, H Sklenar, G Stoll, KM Thayer, P Varnai, MA Young
    posted to computational dna stiffness by wilsoros on 2006-09-18 19:17:06 as **
  • Structure of the rotor of the bacterial flagellar motor revealed by electron cryomicroscopy and single-particle image analysis.
    J Mol Biol, Vol. 337, No. 1. (12 March 2004), pp. 105-113.
    by H Suzuki, K Yonekura, K Namba
    posted to no-tag by wilsoros on 2006-09-13 12:08:31 as ** along with 1 person gabe_rosser
  • Driven polymer translocation through a narrow pore.
    Biophys J, Vol. 77, No. 4. (October 1999), pp. 1824-1838.
    by DK Lubensky, DR Nelson
    posted to no-tag by wilsoros on 2006-09-11 21:00:01 as ** along with 1 person softsimu
  • Pulling pinned polymers and unzipping DNA.
    Phys Rev Lett, Vol. 85, No. 7. (14 August 2000), pp. 1572-1575.
    by DK Lubensky, DR Nelson
    posted to no-tag by wilsoros on 2006-09-11 20:59:00 as **
  • Single molecule statistics and the polynucleotide unzipping transition.
    Phys Rev E Stat Nonlin Soft Matter Phys, Vol. 65, No. 3 Pt 1. (March 2002)
    by DK Lubensky, DR Nelson
    posted to no-tag by wilsoros on 2006-09-11 20:57:36 as **
  • DNA unzipped under a constant force exhibits multiple metastable intermediates.
    Proc Natl Acad Sci U S A, Vol. 100, No. 4. (18 February 2003), pp. 1694-1699.
    by C Danilowicz, VW Coljee, C Bouzigues, DK Lubensky, DR Nelson, M Prentiss
    posted to no-tag by wilsoros on 2006-09-11 20:56:24 as **
  • Unzipping kinetics of double-stranded DNA in a nanopore.
    Phys Rev Lett, Vol. 90, No. 23. (13 June 2003)
    by AF Sauer-Budge, JA Nyamwanda, DK Lubensky, D Branton
    posted to no-tag by wilsoros on 2006-09-11 20:54:57 as **
  • Dynamics of molecular motors and polymer translocation with sequence heterogeneity.
    Biophys J, Vol. 86, No. 6. (June 2004), pp. 3373-3391.
    by Y Kafri, DK Lubensky, DR Nelson
    posted to no-tag by wilsoros on 2006-09-11 20:51:47 as **
  • Dynamics of molecular motors with finite processivity on heterogeneous tracks.
    Phys Rev E Stat Nonlin Soft Matter Phys, Vol. 71, No. 4 Pt 1. (April 2005)
    by Y Kafri, DK Lubensky, DR Nelson
    posted to no-tag by wilsoros on 2006-09-11 20:49:36 as **
  • Modeling DNA loops using the theory of elasticity.
    Phys Rev E Stat Nonlin Soft Matter Phys, Vol. 73, No. 3 Pt 1. (March 2006)
    by A Balaeff, L Mahadevan, K Schulten
    posted to no-tag by wilsoros on 2006-09-07 18:26:59 as **
  • DNA-tension dependence of restriction enzyme activity reveals mechanochemical properties of the reaction pathway.
    Nucleic Acids Res, Vol. 33, No. 8. (2005), pp. 2676-2684.
    by B van den Broek, MC Noom, GJ Wuite
    posted to particles tethered by wilsoros on 2006-09-06 22:20:25 as **
  • Real-time observation of DNA looping dynamics of Type IIE restriction enzymes NaeI and NarI
    Nucleic Acids Research, Vol. 34, No. 1. (2006), pp. 167-174.
    by Bram Broek, Francesco Vanzi, Davide Normanno, Francesco S Pavone, Gijs J Wuite
    posted to particles tethered by wilsoros on 2006-09-06 22:17:12 as ** along with 1 person madhadron
  • Analysis of scanning force microscopy images of protein-induced DNA bending using simulations.
    Nucleic Acids Res, Vol. 33, No. 7. (2005)
    by RT Dame, J van Mameren, MS Luijsterburg, ME Mysiak, A Janićijević, G Pazdzior, PC van der Vliet, C Wyman, GJ Wuite
    posted to no-tag by wilsoros on 2006-09-06 20:46:39 as **
  • Dissecting elastic heterogeneity along DNA molecules coated partly with Rad51 using concurrent fluorescence microscopy and optical tweezers.
    Biophys J (18 August 2006)
    by Joost van Mameren, Mauro Modesti, Roland Kanaar, Claire Wyman, Gijs J L J Wuite, Erwin J G J Peterman
    posted to particles tethered by wilsoros on 2006-09-06 20:40:19 as **
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