oteri's programmi [24 articles] Export

Recent papers added to oteri's library classified by the tag programmi. You can also see everyone's programmi.

	RedMD - Reduced molecular dynamics package [My Copy] Journal of Computational Chemistry, Vol. 30, No. 14. (2009), pp. 2364-2373. by Adam Górecki, Marcin Szypowski, Maciej D&lstrok;ugosz, Joanna Trylska posted to programmi molecular_dynamics by oteri on 2009-09-15 22:51:51 as along with 4 people and 1 group anuragsethi flbarroso jmccammon shwu McCammon
	DNA sequence-dependent deformability deduced from proteinâDNA crystal complexes [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 95, No. 19. (15 September 1998), pp. 11163-11168. by Wilma K. Olson, Andrey A. Gorin, Xiang-Jun Lu, Lynette M. Hock, Victor B. Zhurkin posted to programmi dna by oteri on 2009-09-14 16:20:30 as along with 1 person hagechouchin443
	An efficient method for finding the minimum of a function of several variables without calculating derivatives [My Copy] The Computer Journal, Vol. 7, No. 2. (1 February 1964), pp. 155-162. by M. J. D. Powell posted to programmi algorithm by oteri on 2009-09-14 15:39:32 as along with 3 people and 1 group pmendes yocchiman vandoormaal Structural Biology Group TorVergata
	Biopython: freely available Python tools for computational molecular biology and bioinformatics [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1422-1423. by Peter J. A. Cock, Tiago Antao, Jeffrey T. Chang, et al.Brad A. Chapman, Cymon J. Cox, Andrew Dalke, Iddo Friedberg, Thomas Hamelryck, Frank Kauff, Bartek Wilczynski, Michiel J. L. de Hoon posted to programmi by oteri on 2009-09-14 15:35:24 as along with 38 people and 9 groups eesruiz Geknitics pekrau Sergey_gerbek hwright jfr karinaecomp applebyb klexa rdiaz FabienneGranier thegoose cmzmasek jwm guhjy AlexBateman daforerog ltitodem Thaverkamp sobolevnrm psique dswan neils dullhunk bertelsen Vincent_Rouilly gwallau brianb jorisslob svenrahmann jmeppley VGreiff sjcockell druvus jago kshameer operon svozil Systems_Biology Computational_Systems_Biology Structural Biology Group TorVergata Journal picks baker-group Bioinformatics Software-Architecture OER_Open_Educational_Resources Method_Engineering_Services
	GROMACS 4: Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation [My Copy] Journal of Chemical Theory and Computation, Vol. 4, No. 3. (1 March 2008), pp. 435-447. by Berk Hess, Carsten Kutzner, David van der Spoel, Erik Lindahl posted to algorithm programmi by oteri on 2009-07-15 09:38:23 as along with 23 people and 2 groups sunnytov softsimu parnell rabio krapnik robertvacha rodrigofaccioli pavanghatty janneb ZhangYinhe okapi flbarroso marceavi A_Coletta_Thesis choonpeng Lombardo_7 jwm daevans mmuecke sobolevnrm r2s2 middledomain loison Structural Biology Group TorVergata baker-group
	mmLib Python toolkit for manipulating annotated structural models of biological macromolecules [My Copy] Journal of Applied Crystallography, Vol. 37, No. 1. (Feb 2004), pp. 174-178. by Jay Painter, Ethan A. Merritt posted to programmi by oteri on 2009-07-02 18:24:13 as along with 1 group Structural Biology Group TorVergata
	AutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading [My Copy] Journal of Computational Chemistry, Vol. 9999, No. 9999. (2009), NA. by Oleg Trott, Arthur J. Olson posted to docking_prog programmi by oteri on 2009-06-18 15:49:45 as along with 4 people and 1 group robert A_Coletta_Thesis klexa sobolevnrm Structural Biology Group TorVergata
	SPICKER: a clustering approach to identify near-native protein folds. [My Copy] J Comput Chem, Vol. 25, No. 6. (30 April 2004), pp. 865-871. by Y. Zhang, J. Skolnick posted to programmi by oteri on 2009-06-18 11:48:11 as along with 4 people and 1 group klexa j3xucite iakes nigham Structural Biology Group TorVergata
	PDB file parser and structure class implemented in Python [My Copy] Bioinformatics, Vol. 19, No. 17. (22 November 2003), pp. 2308-2310. by Thomas Hamelryck, Bernard Manderick posted to programmi by oteri on 2009-06-18 11:15:19 as along with 7 people and 1 group edws klexa dgruiz bicko dgront rabio massivemayhem Structural Biology Group TorVergata
	Open source clustering software. [My Copy] Bioinformatics (Oxford, England), Vol. 20, No. 9. (12 June 2004), pp. 1453-1454. by M. J. de Hoon, S. Imoto, J. Nolan, S. Miyano posted to programmi by oteri on 2009-06-18 11:12:16 as along with 25 people and 7 groups dakelley rabio klexa arlam ilyashl matterhorn cswinburne mtagaya macowell davidbroadhurst eme oilcan rahul Ayest balajis piscinero metamerist digisoki wnpx rafamayo atopcu ccr calu karlmicha chad_davis Structural Biology Group TorVergata Fluid-Mechanics-and-Thermal-Science-Research astro SRL Computational_Systems_Biology XMLDataManagement BUiGEM
	DRAWNA: A program for drawing schematic views of nucleic acids [My Copy] Journal of Molecular Graphics, Vol. 12, No. 3. (September 1994), pp. 201-206. by C. Massire posted to dna programmi by oteri on 2009-06-06 21:49:09 as
	[25] Ribbons [My Copy] In Macromolecular Crystallography Part B, Vol. 277 (1997), pp. 493-502. by M. Carson posted to dna programmi by oteri on 2009-06-06 21:48:43 as
	UNIQUIMER 3D, a software system for structural DNA nanotechnology design, analysis and evaluation [My Copy] Nucl. Acids Res. (18 February 2009), gkp005. by Jinhao Zhu, Bryan Wei, Yuan Yuan, Yongli Mi posted to dna programmi by oteri on 2009-05-27 15:22:21 as along with 1 group Structural Biology Group TorVergata
	Scalable molecular dynamics with NAMD [My Copy] Journal of Computational Chemistry, Vol. 26, No. 16. (December 2005), pp. 1781-1802. by James C. Phillips, Rosemary Braun, Wei Wang, et al.James Gumbart, Emad Tajkhorshid, Elizabeth Villa, Christophe Chipot, Robert D. Skeel, Laxmikant Kalé, Klaus Schulten posted to namd programmi by oteri on 2009-04-27 10:00:32 as along with 20 people and 5 groups krapnik pjkiley flbarroso yxue r2s2 grondina rpetrenko oceanwind dfgreen vahmurk gisle dimka jwm ttjoseph sangeetha yoel_rf bilab wilsoros sobolevnrm ibuch Radiation_Damage Stressosome Bioinformatics insilicodrug baker-group
	Analysis of α-Helical Coiled Coils with the Program TWISTER Reveals a Structural Mechanism for Stutter Compensation [My Copy] Journal of Structural Biology, Vol. 137, No. 1-2. (January 2002), pp. 54-64. by S. Strelkov posted to coiled_coil programmi by oteri on 2009-04-21 10:35:17 as
	Large-scale molecular dynamics simulation of DNA: implementation and validation of the AMBER98 force field in LAMMPS [My Copy] by C. Grindon, S. Harris, T. Evans, K. Novik, P. Coveney, C. Laughton posted to programmi by oteri on 2009-04-03 16:43:08 as along with 1 group Structural Biology Group TorVergata
	Finding and Characterizing Tunnels in Macromolecules with Application to Ion Channels and Pores [My Copy] posted to programmi by oteri on 2009-04-01 14:36:27 as along with 1 person and 2 groups jmccammon LOX-1 Receptor McCammon
	The pore dimensions of gramicidin A. [My Copy] Biophys J, Vol. 65, No. 6. (December 1993), pp. 2455-2460. by O. S. Smart, J. M. Goodfellow, B. A. Wallace posted to programmi by oteri on 2009-03-27 14:04:31 as along with 1 person and 3 groups jwm Structural Biology Group TorVergata Radiation_Damage Stressosome
	HOLE: a program for the analysis of the pore dimensions of ion channel structural models. [My Copy] Journal of molecular graphics, Vol. 14, No. 6. (December 1996) by O. S. Smart, J. G. Neduvelil, X. Wang, B. A. Wallace, M. S. Sansom posted to programmi by oteri on 2009-03-27 14:02:17 as along with 2 people and 3 groups dimka jwm Structural Biology Group TorVergata Radiation_Damage Stressosome
	NAMD & cuda [My Copy] posted to namd programmi by oteri on 2009-02-01 12:39:12 as along with 1 group Structural Biology Group TorVergata
	Automated docking of flexible ligands: applications of AutoDock. [My Copy] J Mol Recognit, Vol. 9, No. 1. (b 1996), pp. 1-5. by D. S. Goodsell, G. M. Morris, A. J. Olson posted to cepa docking programmi by oteri on 2009-01-27 12:40:54 as along with 2 people apostola bicko
	GROMACS: fast, flexible, and free. [My Copy] Journal of computational chemistry, Vol. 26, No. 16. (December 2005), pp. 1701-1718. by David Van Der Spoel, Erik Lindahl, Berk Hess, Gerrit Groenhof, Alan E. Mark, Herman J. Berendsen posted to cepa programmi by oteri on 2009-01-27 12:38:13 as along with 20 people and 2 groups arifor krapnik r2s2 janneb dsmueller choonpeng sebk dimka jwm ttjoseph bilab rabio Dinler tji softsimu ashaytan robertvacha sunnytov Diego_Prada A_Coletta_Thesis Radiation_Damage Stressosome
	Automated docking using a Lamarckian genetic algorithm and an empirical binding free energy function [My Copy] Journal of Computational Chemistry, Vol. 19, No. 14. (6 January 1998), pp. 1639-1662. by Garrett M. Morris, David S. Goodsell, Robert S. Halliday, et al.Ruth Huey, William E. Hart, Richard K. Belew, Arthur J. Olson posted to cepa docking_prog programmi by oteri on 2009-01-12 13:57:27 as along with 23 people and 2 groups trishul nickolay npt11tpn jamalex joule lna Lombardo_7 karinaecomp A_Coletta_Thesis arlam dgruiz nachtalp P2324548 yongzhao peprovy tovrstra papatonyhill schlauchi carlescorbi middledomain LamBras andreramme UVA_mag_res Chang group TSRI_MGL
	Paircoil2: improved prediction of coiled coils from sequence [My Copy] Bioinformatics, Vol. 22, No. 3. (1 February 2006), pp. 356-358. by A. V. McDonnell, T. Jiang, A. E. Keating, B. Berger posted to structure_prediction programmi coiled_coil by oteri on 2008-12-31 10:05:18 as along with 1 person and 1 group TLVincent Structural Biology Group TorVergata

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docking	146
lox-1	75
dna	46
coiled_coil	40
docking_prog	38
cepa	32
programmi	24
drug_design	20
dna_nanostructures	19
neck_domain	16
topo	15
cluster_analysis	12
figata	11
adducts	8
algorithm	8
molecular_dynamics	7
implicit_solvent	6
znua	5
methods	4
protein-peptide_dock	4
structure_prediction	4
circular_dichroism	3
cpt	3
domain_movement	3
ambertools	2
artificial_intelligence	2
chiancone	2
coarse_grained	2
guidelines	2
inibitori	2
modelling	2
mordor	2
namd	2
nmr_and_md	2
peptide	2
protein-protein_dock	2
ricerche	2
user_manual	2
analysis_prog	1
carrier	1
cuda	1
database	1
electrostatic	1
electrostatics	1
fleksy	1
initial_screening	1
langevin	1
lipid	1
nanocage	1
papvir	1
pedc	1
protein-protein_docking	1
qsar	1
rna	1
server	1

oteri's programmi [24 articles] Export

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