melo_mcr's library 59 articles Export

	Dual folding pathways of an alpha/beta protein from all-atom ab initio folding simulations. [My Copy] The Journal of chemical physics, Vol. 131, No. 16. (28 October 2009) by Hongxing Lei, Zhi-Xiang X. Wang, Chun Wu, Yong Duan posted to protein_structure pathways folding energy_function all_atom ab_initio by melo_mcr on 2009-11-18 12:58:16 as
	Modeling the thalamocortical loop. [My Copy] International journal of bio-medical computing, Vol. 35, No. 4. (May 1994), pp. 267-296. by L. A. de Carvalho posted to thalamus neural_network cortex complex_systems burst_modes biomath by melo_mcr on 2009-11-17 12:08:30 as
	Network properties of a model for conscious and unconscious mental processes☆ [My Copy] Neurocomputing, Vol. 71, No. 16-18. (October 2008), pp. 3367-3371. by R. Wedemann, L. Decarvalho, R. Donangelo posted to neural_network networks consciousness complex_networks biomath associativity by melo_mcr on 2009-11-17 11:22:09 as
	How To Choose a Good Scientific Problem [My Copy] Molecular Cell, Vol. 35, No. 6. (24 September 2009), pp. 726-728. by Uri Alon posted to science by melo_mcr on 2009-10-30 14:04:56 as along with 124 people and 6 groups artaban421 cefa gvdh penneyft welliegirl bertelsen thegoose xawen chriswillmott nellapower ishiken andreff claudiushauptmann cermak bmoores karthikraman applebyb mordiano Gorzomagnificent Horduna ajaymalik mmwoodman dbikard toszko mthomure timflutre cyounkin marsl0am jmzhuo dmorti renatomilani ibre kevinemamy Sergey_gerbek huberse ddbb12 seneca mattbiehl mmborges GeeSharpMinor jjjpppfff zhangfh andreacapocci aaltenburger iannis jichok josephjose TorstenWaldminghaus kshameer rudalert kvalyi duel_jetty allaves rabit fercosber hax123 iskanbasal livingthingdan poojamaj gonzalez amynmoore ramalldf pvdg sfalsharif dill2009 singhsh rogermug aha jarekadam Jansen04 cgravlee lkakinami anuragsethi flips robfree kaliczp yyfwuhan luciensamary elsantosneto mgaldino daveGerrard sandfire tnhh lesandrop munzmarci pdpcosta mxro wangngu myriasofo OliverHarriman AnthonySoprano robertlischke R_C_Cordeiro daforerog operon nandipati wenhaosparty jeffcrow leocmcheung fgibson snakehsu cisevol michaelbarton dna dullhunk danilov m_lew abellogin cxshang grahamc SantoshKalwar Xusheng leonardo roys benoitvalley zchen75 darshan druvus Asclepius Zephyrus songpku aalibes flieder pedromts Brain-like research group UWA Science Communication milab@yzu Information Integration Architecture BergmanLab Roswell Cancer Crosstalk
	Experimental Measures of Amino Acid Hydrophobicity and the Topology of Transmembrane and Globular Proteins [My Copy] J. Gen. Physiol., Vol. 129, No. 5. (30 April 2007), pp. 357-362. by Richard Wolfenden posted to solvation parameters aminoacids by melo_mcr on 2009-10-27 00:41:43 as along with 1 person ashaytan
	Affinities of amino acid side chains for solvent water [My Copy] Biochemistry, Vol. 20, No. 4. (1 February 1981), pp. 849-855. by R. Wolfenden, L. Andersson, P. M. Cullis, C. C. B. Southgate posted to solvation parameters aminoacids by melo_mcr on 2009-10-23 21:01:32 as
	Accurate Calculation of Hydration Free Energies Using Macroscopic Solvent Models [My Copy] The Journal of Physical Chemistry, Vol. 98, No. 7. (1 February 1994), pp. 1978-1988. by Doree Sitkoff, Kim A. Sharp, Barry Honig posted to solvation parameters aminoacids by melo_mcr on 2009-10-23 20:59:47 as along with 4 people onufriev dmitry_s_yershov flbarroso dfgreen
	Comparing the polarities of the amino acids: side-chain distribution coefficients between the vapor phase, cyclohexane, 1-octanol, and neutral aqueous solution [My Copy] Biochemistry, Vol. 27, No. 5. (1 March 1988), pp. 1664-1670. by Anna Radzicka, Richard Wolfenden posted to solvation parameters aminoacids by melo_mcr on 2009-10-23 20:58:22 as
	Differentiation of lipid-associating helices by use of three-dimensional molecular hydrophobicity potential calculations. [My Copy] Journal of Biological Chemistry, Vol. 266, No. 24. (25 August 1991), pp. 16120-16127. by R. Brasseur posted to solvation parameters folding energy_function by melo_mcr on 2009-10-17 21:46:34 as
	Multidimensional adaptive umbrella sampling: Applications to main chain and side chain peptide conformations [My Copy] Journal of Computational Chemistry, Vol. 18, No. 12. (1997), pp. 1450-1462. by Christian Bartels, Martin Karplus posted to folding_algorithm folding by melo_mcr on 2009-10-17 21:15:26 as along with 1 person Diego_Prada
	Docking by Monte Carlo minimization with a solvation correction: Application to an FKBP - substrate complex [My Copy] Journal of Computational Chemistry, Vol. 18, No. 6. (1997), pp. 723-743. by Amedeo Caflisch, Stefan Fischer, Martin Karplus posted to solvation protein_surface energy_function by melo_mcr on 2009-10-17 21:12:04 as along with 1 person flbarroso
	Energetics of Protein Folding [My Copy] Journal of Molecular Biology, Vol. 371, No. 2. (10 August 2007), pp. 283-301. by Robert L. Baldwin posted to no-tag by melo_mcr on 2009-10-17 21:08:57 as along with 6 people flbarroso higueruelo mijam yarikson choonpeng cat_worth
	Solvent accessible surface area approximations for rapid and accurate protein structure prediction [My Copy] Journal of Molecular Modeling, Vol. 15, No. 9. (1 September 2009), pp. 1093-1108. by Elizabeth Durham, Brent Dorr, Nils Woetzel, René Staritzbichler, Jens Meiler posted to protein_surface folding by melo_mcr on 2009-10-17 21:05:28 as along with 1 person and 1 group sobolevnrm baker-group
	Molecular mechanisms for protein-encoded inheritance [My Copy] Nat Struct Mol Biol, Vol. 16, No. 9. (September 2009), pp. 973-978. by Jed J. W. Wiltzius, Meytal Landau, Rebecca Nelson, et al.Michael R. Sawaya, Marcin I. Apostol, Lukasz Goldschmidt, Angela B. Soriaga, Duilio Cascio, Kanagalaghatta Rajashankar, David Eisenberg posted to protein_structure folding by melo_mcr on 2009-09-04 22:45:52 as
	Cognition: Differential-geometrical view on neural networks [My Copy] Discrete Dynamics in Nature and Society, Vol. 3, No. 1. (1999), pp. 43-49. by S. A. Buffalov posted to difgeo biomath by melo_mcr on 2009-08-25 21:04:03 as
	The shape operator for differential analysis of images. [My Copy] Information processing in medical imaging : proceedings of the ... conference, Vol. 18 (July 2003), pp. 101-113. by Brian Avants, James Gee posted to difgeo biomath bio_imagens by melo_mcr on 2009-08-25 21:01:54 as
	The minimal molecular surface [My Copy] (20 Oct 2006) by P. W. Bates, G. W. Wei, Shan Zhao posted to protein_surface difgeo biomath by melo_mcr on 2009-08-25 21:00:00 as
	Bacteriophages Encode Factors Required for Protection in a Symbiotic Mutualism [My Copy] Science, Vol. 325, No. 5943. (21 August 2009), pp. 992-994. by Kerry M. Oliver, Patrick H. Degnan, Martha S. Hunter, Nancy A. Moran posted to virus ecologia bacteria by melo_mcr on 2009-08-21 16:01:05 as along with 2 people and 1 group biomcgary jbhiatt Journal picks
	General purpose molecular dynamics simulations fully implemented on graphics processing units [My Copy] Journal of Computational Physics, Vol. 227, No. 10. (01 May 2008), pp. 5342-5359. by J. Anderson, C. Lorenz, A. Travesset posted to hoomd gpu by melo_mcr on 2009-08-14 15:30:51 as along with 5 people georgwachter iantunbridge RamuAnandakrishnan timg michaelbussmann
	Emergence of Scaling in Random Networks [My Copy] Science, Vol. 286, No. 5439. (15 October 1999), pp. 509-512. by Albert-László Barabási, Réka Albert posted to networks complex_systems by melo_mcr on 2009-08-12 19:55:24 as along with 51 people asangansi tonyony tessonec leonglester aniakovas nlimam acrmartins bivas makukha thepogoman vmarceau mfuhr tomhebbron eitanla1 voiklis jb44 kinop panisson anphony Adso mattjb phoenixzxl sWorgan czeller alanyang kaarsinogen diamantis pgastrein nolodie qwermish dragonrez shivaram tolosoft balicea ddahlem merazzle Borelli muraken lshaw gurkanbebek jaspervoskuilen rcrane ransombriggs idreams2 nkishan justforscraps Evangelia kb Diego_Prada subhacom ethkim
	Scale-Free Networks: A Decade and Beyond [My Copy] Science, Vol. 325, No. 5939. (24 July 2009), pp. 412-413. by Albert-Laszlo Barabasi posted to complex_systems networks by melo_mcr on 2009-08-04 20:19:45 as along with 27 people and 2 groups danilov jaspervoskuilen welliegirl Sergey_gerbek guhjy echi sld65 ddahlem normaali thegoose rdiaz matteodellamico cjryan aidankeane sergiun compbio harrykipper reyez ganden Borelli druvus apocapoc dullhunk dswan daforerog tnhh pick600 complex networks LABSS
	Ourselves and Our Interactions: The Ultimate Physics Problem? [My Copy] Science, Vol. 325, No. 5939. (24 July 2009), pp. 406-408. by Adrian Cho posted to complex_systems networks by melo_mcr on 2009-08-04 20:17:20 as along with 1 person apocapoc
	Innate and Adaptive Immunity Cooperate Flexibly to Maintain Host-Microbiota Mutualism [My Copy] Science, Vol. 325, No. 5940. (31 July 2009), pp. 617-620. by Emma Slack, Siegfried Hapfelmeier, Barbel Stecher, et al.Yuliya Velykoredko, Maaike Stoel, Melissa A. E. Lawson, Markus B. Geuking, Bruce Beutler, Thomas F. Tedder, Wolf-Dietrich Hardt, Premysl Bercik, Elena F. Verdu, Kathy D. McCoy, Andrew J. Macpherson posted to imuno by melo_mcr on 2009-08-03 18:51:51 as along with 2 people VGreiff leliavski
	Amino acid hydrophobicity and accessible surface area. [My Copy] Physical review. E, Statistical, nonlinear, and soft matter physics, Vol. 75, No. 1 Pt 1. (January 2007) by M. A. Moret, G. F. Zebende posted to fractal protein_surface by melo_mcr on 2009-07-19 16:00:32 as
	The Chemical Basis of Morphogenesis [My Copy] Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences, Vol. 237, No. 641. (1952), pp. 37-72. by A. M. Turing posted to biomath morphogenesis by melo_mcr on 2009-07-17 00:40:28 as along with 4 people kevinstuttgard jgoodwin johncumbers cwr
	Characterizing protein conformation space [My Copy] (January 2007) by Anshul Nigham, David Hsu, Jean-Claude Latombe posted to conformational_space energy_surface folding by melo_mcr on 2009-07-16 20:19:55 as
	Global patterns of speciation and diversity [My Copy] Nature, Vol. 460, No. 7253. (16 July 2009), pp. 384-387. by M. A. M. de Aguiar, M. Baranger, E. M. Baptestini, L. Kaufman, Y. Bar-Yam posted to biomath evolution by melo_mcr on 2009-07-16 18:01:17 as along with 6 people and 1 group operon kinestetika sharpton jago dinnes djkt iSEEM
	Effective energy function for proteins in solution. [My Copy] Proteins, Vol. 35, No. 2. (1 May 1999), pp. 133-152. by T. Lazaridis, M. Karplus posted to energy_function folding protein_surface by melo_mcr on 2009-07-16 04:32:38 as along with 6 people and 2 groups oceanwind marcius bluvsh1 choonpeng hmk kgutwin BioinfoCIPF SGU-CIPF
	AGBNP: an analytic implicit solvent model suitable for molecular dynamics simulations and high-resolution modeling. [My Copy] Journal of computational chemistry, Vol. 25, No. 4. (March 2004), pp. 479-499. by E. Gallicchio, R. M. Levy posted to energy_function folding protein_structure by melo_mcr on 2009-07-16 02:48:18 as along with 6 people flbarroso aphou dfgreen RamuAnandakrishnan jwagoner onufriev
	ABSINTH: a new continuum solvation model for simulations of polypeptides in aqueous solutions. [My Copy] Journal of computational chemistry, Vol. 30, No. 5. (15 April 2009), pp. 673-699. by A. Vitalis, R. V. Pappu posted to energy_function folding protein_structure by melo_mcr on 2009-07-16 02:46:35 as along with 2 people and 1 group sobolevnrm agrossfield baker-group
	Constant time clash detection in protein folding. [My Copy] Journal of bioinformatics and computational biology, Vol. 7, No. 1. (February 2009), pp. 55-74. by M. M. Bugalho, A. L. Oliveira posted to data_structure docking folding protein_structure by melo_mcr on 2009-07-15 19:46:58 as
	Discrimination of the native from misfolded protein models with an energy function including implicit solvation. [My Copy] Journal of molecular biology, Vol. 288, No. 3. (7 May 1999), pp. 477-487. by T. Lazaridis, M. Karplus posted to energy_function folding protein_structure by melo_mcr on 2009-07-15 19:40:48 as along with 1 person bluvsh1
	A Method for Parameter Optimization in Computational Biology [My Copy] Vol. 79, No. 6. (1 December 2000), pp. 2818-2824. by J. B. Rosen, A. T. Phillips, S. Y. Oh, K. A. Dill posted to folding by melo_mcr on 2009-07-15 19:12:06 as
	How far can sequences diverge? [My Copy] Nature, Vol. 385, No. 6617. (13 February 1997), pp. 579-581. by Cyrus Chothia, Mark Gerstein posted to evolution folding protein_sequence by melo_mcr on 2009-07-15 17:28:08 as
	Converging concepts of protein folding in vitro and in vivo [My Copy] Nature Structural & Molecular Biology, Vol. 16, No. 6. (03 June 2009), pp. 574-581. by F. Ulrich Hartl, Manajit Hayer-Hartl posted to energy_surface folding review by melo_mcr on 2009-07-15 17:09:49 as along with 6 people bratwurst skywalkerus02 siggi84 scampos reyez RamuAnandakrishnan
	An expanding arsenal of experimental methods yields an explosion of insights into protein folding mechanisms. [My Copy] Nature structural & molecular biology, Vol. 16, No. 6. (03 June 2009), pp. 582-588. by Alice I. Bartlett, Sheena E. Radford posted to energy_surface folding review by melo_mcr on 2009-07-15 17:07:31 as along with 3 people saunders skywalkerus02 siggi84
	Quantitative Prediction of Critical Amino Acid Positions for Protein Folding. [My Copy] Protein and peptide letters (10 September 2009) by T. Thireou, V. Atlamazoglou, N. A. Papandreou, M. Lonquety, J. Chomilier, E. Eliopoulos posted to folding protein_sequence protein_structure by melo_mcr on 2009-07-15 16:59:15 as
	Using multi-data hidden Markov models trained on local neighborhoods of protein structure to predict residue-residue contacts [My Copy] Bioinformatics, Vol. 25, No. 10. (15 May 2009), pp. 1264-1270. by Patrik Bjorkholm, Pawel Daniluk, Andriy Kryshtafovych, Krzysztof Fidelis, Robin Andersson, Torgeir R. Hvidsten posted to biomath folding protein_structure stochastic by melo_mcr on 2009-07-15 16:55:20 as along with 1 person TRHvidsten
	Analysis of the Free-Energy Surface of Proteins from Reversible Folding Simulations [My Copy] PLoS Comput Biol, Vol. 5, No. 7. (10 July 2009), e1000428. by Lucy R. Allen, Sergei V. Krivov, Emanuele Paci posted to energy_surface folding protein_structure by melo_mcr on 2009-07-14 22:55:48 as along with 2 people zwang Diego_Prada
	Sequence-Based Methods for Real Value Predictions of Protein Structure [My Copy] Current Bioinformatics, Vol. 3, No. 3. (September 2008), pp. 183-196. by Lukasz Kurgan, Krzysztof Cios, Hua Zhang, et al.Tuo Zhang, Ke Chen, Shiyi Shen, Jishou Ruan posted to folding protein_structure protein_surface review by melo_mcr on 2009-07-14 15:21:31 as along with 1 person simranjeet
	SERF: A Program for Accessible Surface Area Calculations [My Copy] Journal of Molecular Graphics and Modelling, Vol. 15, No. 4. (August 1997), pp. 238-244. by D. Flower posted to protein_surface by melo_mcr on 2009-07-14 04:19:39 as along with 1 person ajaymalik
	Hydrophobic regions on protein surfaces: definition based on hydration shell structure and a quick method for their computation. [My Copy] Protein engineering, Vol. 9, No. 12. (December 1996), pp. 1121-1133. by F. Eisenhaber, P. Argos posted to protein_surface by melo_mcr on 2009-07-14 04:17:53 as
	A set of van der Waals and coulombic radii of protein atoms for molecular and solvent-accessible surface calculation, packing evaluation, and docking [My Copy] Proteins: Structure, Function, and Genetics, Vol. 32, No. 1. (1998), pp. 111-127. by Ai-Jun Li, Ruth Nussinov posted to docking folding protein_surface by melo_mcr on 2009-07-14 04:12:38 as along with 1 person sebk
	The nature of the accessible and buried surfaces in proteins [My Copy] Journal of Molecular Biology, Vol. 105, No. 1. (25 July 1976), pp. 1-12. by C. Chothia posted to folding protein_sequence protein_structure protein_surface by melo_mcr on 2009-07-14 04:03:32 as
	Correlation between sequence hydrophobicity and surface-exposure pattern of database proteins [My Copy] Protein Sci, Vol. 13, No. 3. (1 March 2004), pp. 752-762. by Susanne Moelbert, Eldon Emberly, Chao Tang posted to folding protein_sequence protein_surface by melo_mcr on 2009-07-14 02:52:47 as along with 1 person nickolay
	An intuitive approach to measuring protein surface curvature. [My Copy] Proteins, Vol. 61, No. 4. (1 December 2005), pp. 1068-1074. by R. G. Coleman, M. A. Burr, D. L. Souvaine, A. C. Cheng posted to biomath protein_surface by melo_mcr on 2009-07-13 20:44:21 as along with 2 people nickolay Evangelia
	Analysis of accessible surface of residues in proteins. [My Copy] Protein Sci, Vol. 12, No. 7. (July 2003), pp. 1406-1417. by L. Lins, A. Thomas, R. Brasseur posted to protein_surface by melo_mcr on 2009-07-13 20:36:52 as along with 2 people mdimmic ashaytan
	A new analytical method for computing solvent-accessible surface area of macromolecules and its gradients. [My Copy] Journal of computational chemistry, Vol. 26, No. 4. (March 2005), pp. 334-343. by S. Hayryan, C. K. Hu, J. Skrivánek, E. Hayryane, I. Pokorný posted to protein_surface by melo_mcr on 2009-07-13 20:30:50 as along with 1 person dgront
	Fast protein tertiary structure retrieval based on global surface shape similarity. [My Copy] Proteins (24 March 2008) by Lee Sael, Bin Li, David La, et al.Yi Fang, Karthik Ramani, Raif Rustamov, Daisuke Kihara posted to artigo_teste folding protein_structure protein_surface by melo_mcr on 2009-07-13 20:06:47 as along with 2 people and 1 group neils CameronNeylon MuraLab
	Analytical approximation to the accessible surface area of proteins. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 77, No. 4. (April 1980), pp. 1736-1740. by Shoshana J. Wodak, Joël Janin posted to protein_surface by melo_mcr on 2009-07-13 20:03:20 as along with 2 people dgront mijam

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folding	29
protein_surface	17
protein_structure	15
biomath	9
energy_function	7
solvation	6
parameters	5
aminoacids	4
complex_systems	4
energy_surface	4
networks	4
protein_sequence	4
review	4
difgeo	3
docking	2
evolution	2
neural_network	2
stochastic	2
ab_initio	1
all_atom	1
artigo_teste	1
associativity	1
bacteria	1
bio_imagens	1
burst_modes	1
complex_networks	1
conformational_space	1
consciousness	1
cortex	1
data_structure	1
ecologia	1
folding_algorithm	1
fractal	1
game_theory	1
gpu	1
hoomd	1
imuno	1
morphogenesis	1
pathways	1
phase_transition	1
protein_volume	1
science	1
synthetic	1
thalamus	1
virus	1

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