apaydin's assignments [39 articles] Export

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	Generating Multiple Solutions for Mixed Integer Programming Problems [My Copy] Integer Programming and Combinatorial Optimization (2007), pp. 280-294. by Emilie Danna, Mary Fenelon, Zonghao Gu, Roland Wunderling posted to programming nmr linear integer diversity assignments by apaydin on 2009-11-08 10:43:29 as
	PINE-SPARKY: graphical interface for evaluating automated probabilistic peak assignments in protein NMR spectroscopy [My Copy] Bioinformatics, Vol. 25, No. 16. (15 August 2009), pp. 2085-2087. by Woonghee Lee, William M. Westler, Arash Bahrami, Hamid R. Eghbalnia, John L. Markley posted to visualization nmr assignments by apaydin on 2009-08-17 11:51:49 as
	NOESY-Based Strategy for Assignments of Backbone and Side Chain Resonances of Large Proteins without Deuteration [My Copy] Nature Protocols (2006) by Xu posted to assignments nmr by apaydin on 2009-07-13 10:51:21 as
	Automated sequence-specific NMR assignment of homologous proteins using the program GARANT [My Copy] Journal of Biomolecular NMR, Vol. 7, No. 3. (1 May 1996), pp. 207-213. by Christian Bartels, Martin Billeter, Peter Güntert, Kurt Wüthrich posted to assignments nmr resonance sba by apaydin on 2009-05-13 13:33:45 as along with 1 person lna
	Structure-based protein NMR assignments using native structural ensembles [My Copy] Journal of Biomolecular NMR, Vol. 40, No. 4. (April 2008), pp. 263-276. by Mehmet Apaydın, Vincent Conitzer, Bruce Donald posted to assignments nma nmr resonance sba by apaydin on 2009-04-28 09:42:20 as along with 1 person rph
	The fumarate sensor DcuS: progress in rapid protein fold elucidation by combining protein structure prediction methods with NMR spectroscopy [My Copy] Journal of Magnetic Resonance, Vol. 173, No. 2. (April 2005), pp. 310-316. by Jens Meiler, David Baker posted to nmr sba assignments by apaydin on 2009-04-27 16:17:37 as along with 1 person karbak
	Highly automated protein backbone resonance assignment within a few hours: the «BATCH» strategy and software package [My Copy] Journal of Biomolecular NMR by Ewen Lescop, Bernhard Brutscher posted to assignments fast nmr resonance by apaydin on 2009-04-27 14:08:38 as
	autolink.pdf (application/pdf Object) [My Copy] posted to nmr assignments by apaydin on 2009-03-31 13:23:53 as
	Statistical evaluation of NMR backbone resonance assignment. [My Copy] International journal of bioinformatics research and applications, Vol. 2, No. 2. (2006), pp. 147-160. by G. Lin, X. Wan, T. Tegos, Y. Li posted to nmr assignments by apaydin on 2009-03-10 15:24:51 as
	An efficient branch-and-bound algorithm for the assignment of protein backbone NMR peaks [My Copy] Bioinformatics Conference, 2002. Proceedings. IEEE Computer Society In Bioinformatics Conference, 2002. Proceedings. IEEE Computer Society (2002), pp. 165-174. by Guohui Lin, Dong Xu, Zhi-Zhong Chen, Tao Jiang, Jianjun Wen, Ying Xu posted to algorithms branch_and_bound nmr assignments by apaydin on 2009-03-10 11:39:27 as
	Automated analysis of protein NMR assignments using methods from artificial intelligence [My Copy] Journal of Molecular Biology, Vol. 269, No. 4. (20 June 1997), pp. 592-610. by D. Zimmerman posted to assignments nmr resonance_assignment by apaydin on 2009-02-15 14:31:39 as along with 2 people kumar_physics lna
	Sequence-specific NMR assignment of proteins by global fragment mapping with the program Mapper [My Copy] Journal of Biomolecular NMR, Vol. 18, No. 2. (1 October 2000), pp. 129-137. by Peter Güntert, Michael Salzmann, Daniel Braun, Kurt Wüthrich posted to assignments nmr resonance_assignment by apaydin on 2009-02-15 14:30:13 as along with 1 person lna
	GASA: a graph-based automated NMR backbone resonance sequential assignment program. [My Copy] Journal of bioinformatics and computational biology, Vol. 5, No. 2a. (April 2007), pp. 313-333. by X. Wan, G. Lin posted to assignments nmr by apaydin on 2009-02-06 07:17:12 as
	CISA: combined NMR resonance connectivity information determination and sequential assignment. [My Copy] IEEE/ACM transactions on computational biology and bioinformatics / IEEE, ACM, Vol. 4, No. 3. (p 2007), pp. 336-348. by X. Wan, G. Lin posted to assignments nmr by apaydin on 2009-02-06 07:12:35 as along with 1 person babakap
	Nucleic Acids Research - Abstract: Volume 33(14) December 2005 p 4593-4601 GANA-a genetic algorithm for NMR backbone resonance assignment. [My Copy] posted to algorithms assignments genetic nmr by apaydin on 2009-02-06 07:10:05 as
	Automated analysis of protein NMR assignments and structures. [My Copy] Chemical reviews, Vol. 104, No. 8. (August 2004), pp. 3541-3556. by M. C. Baran, Y. J. Huang, H. N. Moseley, G. T. Montelione posted to assignments nmr review by apaydin on 2009-02-03 09:59:31 as along with 2 people kumar_physics lna
	Stereospecific assignments of protein NMR resonances based on the tertiary structure and 2D/3D NOE data [My Copy] Journal of Computational Chemistry, Vol. 27, No. 6. (2006), pp. 791-797. by Primo&zcaron; Pristovscaronek, Lorella Franzoni posted to assignments based nmr structure by apaydin on 2009-02-03 09:14:39 as
	Fast structure-based assignment of 15N HSQC spectra of selectively 15N-labeled paramagnetic proteins. [My Copy] Journal of the American Chemical Society, Vol. 126, No. 9. (10 March 2004), pp. 2963-2970. by G. Pintacuda, M. A. Keniry, T. Huber, A. Y. Park, N. E. Dixon, G. Otting posted to assignments based nmr structure by apaydin on 2009-02-03 09:12:38 as
	Graphical interpretation of Boolean operators for protein NMR assignments [My Copy] Journal of Biomolecular NMR, Vol. 42, No. 1. (1 September 2008), pp. 11-21. by Dries Verdegem, Klaas Dijkstra, Xavier Hanoulle, Guy Lippens posted to assignments nmr by apaydin on 2009-02-02 13:55:13 as
	pepmorph CMU-CS-02-195.pdf (application/pdf Object) [My Copy] by Erdmann, Rule posted to assignments nmr by apaydin on 2009-02-01 15:24:58 as
	MONTE: An automated Monte Carlo based approach to nuclear magnetic resonance assignment of proteins [My Copy] Journal of Biomolecular NMR, Vol. 25, No. 1. (January 2003), pp. 1-9. by Kevin T. Hitchens, Jonathan A. Lukin, Yiping Zhan, Scott A. Mccallum, Gordon S. Rule posted to nmr monte_carlo assignments 4d-noesy by apaydin on 2009-01-29 14:17:42 as along with 1 person lna
	GARANT-a general algorithm for resonance assignment of multidimensional nuclear magnetic resonance spectra [My Copy] Journal of Computational Chemistry, Vol. 18, No. 1. (1997), pp. 139-149. by Christian Bartels, Peter Güntert, Martin Billeter, Kurt Wüthrich posted to algorithms assignments genetic nmr by apaydin on 2009-01-29 14:13:32 as
	Automated probabilistic method for assigning backbone resonances of (13C,15N)-labeled proteins [My Copy] Journal of Biomolecular NMR, Vol. 9, No. 2. (1 February 1997), pp. 151-166. by Jonathan A. Lukin, Andrew P. Gove, Sarosh N. Talukdar, Chien Ho posted to annealing assignments backbone nmr simulated by apaydin on 2009-01-29 14:10:21 as
	Protein Heteronuclear NMR Assignments Using Mean-Field Simulated Annealing [My Copy] Journal of Magnetic Resonance, Vol. 125, No. 1. (March 1997), pp. 34-42. by N. Buchler posted to annealing assignments nmr simulated by apaydin on 2009-01-29 14:05:08 as
	Approximation algorithms for NMR spectral peak assignment [My Copy] Theor. Comput. Sci., Vol. 299, No. 1-3. (2003), pp. 211-229. by Zhi Z. Chen, Tao Jiang, Guohui Lin, et al.Jianjun Wen, Dong Xu, Jinbo Xu, Ying Xu posted to algorithms approximation nmr assignments by apaydin on 2009-01-29 12:11:20 as
	RIBRA—An Error-Tolerant Algorithm for the NMR Backbone Assignment Problem [My Copy] Journal of Computational Biology, Vol. 13, No. 2. (2006), pp. 229-244. by Kun-Pin Wu, Jia-Ming Chang, Jun-Bo Chen, et al.Chi-Fon Chang, Wen-Jin Wu, Tai-Huang Huang, Ting-Yi Sung, Wen-Lian Hsu posted to backbone nmr assignments by apaydin on 2009-01-29 12:06:52 as along with 1 person babakap
	NOEnet-Use of NOE networks for NMR resonance assignment of proteins with known 3D structure [My Copy] Bioinformatics, Vol. 25, No. 4. (15 February 2009), pp. 474-481. by Dirk Stratmann, Carine van Heijenoort, Eric Guittet posted to assignments nmr noe sba by apaydin on 2009-01-23 20:11:53 as along with 2 people babakap riffraff
	REDCAT: a residual dipolar coupling analysis tool [My Copy] Journal of Magnetic Resonance, Vol. 167, No. 2. (April 2004), pp. 228-241. by Homayoun Valafar, James H. Prestegard posted to nmr rdc redcat tool visualization assignments by apaydin on 2007-10-30 17:51:59 as
	Automated analysis of NMR assignments and structures for proteins [My Copy] Current Opinion in Structural Biology, Vol. 9, No. 5. (1 October 1999), pp. 635-642. by Hunter N. B. Moseley, Gaetano T. Montelione posted to assignments determination nmr protein review structure by apaydin on 2007-09-07 16:31:57 as along with 1 person kumar_physics
	Inferential backbone assignment for sparse data [My Copy] Journal of Biomolecular NMR, Vol. 35, No. 3. (1 July 2006), pp. 187-208. by Olga Vitek, Chris Bailey-Kellogg, Bruce Craig, Jan Vitek posted to assignments complete nmr search by apaydin on 2007-03-22 15:45:19 as along with 1 person babakap
	ARIA2: Automated NOE assignment and data integration in NMR structure calculation [My Copy] Bioinformatics, Vol. 23, No. 3. (1 February 2007), pp. 381-382. by Wolfgang Rieping, Michael Habeck, Aymeric Bernard, Therese E. Malliavin, Michael Nilges posted to assignments nmr by apaydin on 2007-03-20 18:54:33 as
	RefDB: A database of uniformly referenced protein chemical shifts [My Copy] Journal of Biomolecular NMR, Vol. V25, No. 3. (1 March 2003), pp. 173-195. by Haiyan Zhang, Stephen Neal, David S. Wishart posted to chemical database determination nmr protein shifts structure assignments by apaydin on 2007-03-06 15:38:14 as
	Assignment strategy for proteins with known structure. [My Copy] J Magn Reson, Vol. 157, No. 1. (July 2002), pp. 119-123. by J. C. Hus, J. J. Prompers, R. Brüschweiler posted to structure nmr based assignments by apaydin on 2007-01-29 21:14:42 as
	PACES: Protein sequential assignment by computer-assisted exhaustive search [My Copy] Journal of Biomolecular NMR, Vol. V26, No. 2. (1 June 2003), pp. 93-111. by Brian E. Coggins, Pei Zhou posted to sequential protein nmr assignments by apaydin on 2007-01-19 16:00:01 as
	Structure of the NCoA-1/SRC-1 PAS-B Domain Bound to the LXXLL Motif of the STAT6 Transactivation Domain [My Copy] Journal of Molecular Biology, Vol. 336, No. 2. (13 February 2004), pp. 319-329. by Adelia Razeto, Venkatesh Ramakrishnan, Claudia M. Litterst, et al.Karin Giller, Christian Griesinger, Teresa Carlomagno, Nils Lakomek, Thomas Heimburg, Marco Lodrini, Edith Pfitzner, Stefan Becker posted to contacts example germany nmr assignments by apaydin on 2007-01-05 18:01:07 as
	Backbone assignment of proteins with known structure using residual dipolar couplings [My Copy] Journal of Biomolecular NMR, Vol. V30, No. 1. (2004), pp. 25-35. by Young-Sang Jung, Markus Zweckstetter posted to backbone homologous mars nmr rdc structure assignments by apaydin on 2006-12-12 19:07:53 as
	Mars - robust automatic backbone assignment of proteins [My Copy] Journal of Biomolecular NMR, Vol. V30, No. 1. (2004), pp. 11-23. by Young-Sang Jung, Markus Zweckstetter posted to backbone nmr assignments by apaydin on 2006-12-12 19:06:39 as
	Model-based assignment and inference of protein backbone Nuclear Magnetic Resonances. [My Copy] Statistical applications in genetics and molecular biology, Vol. 3, No. 1. (2004) by Olga Vitek, Jan Vitek, Bruce Craig, Chris Bailey-Kellogg posted to chemical function nmr resonance scoring shift assignments by apaydin on 2006-11-27 15:00:16 as along with 1 person babakap
	From NMR chemical shifts to amino acid types: investigation of the predictive power carried by nuclei. [My Copy] J Biomol NMR, Vol. 30, No. 1. (September 2004), pp. 47-60. by A. Marin, T. E. Malliavin, P. Nicolas, M. A. Delsuc posted to chemical function nmr protein resonance scoring shift structure assignments by apaydin on 2006-05-01 16:56:15 as along with 1 person babakap

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nmr	188
protein	108
protein_dynamics	106
protein_folding	66
review	52
folding	51
protein_structure_determination	43
assignments	39
structure	39
protein_ligand_binding	34
protein_design	26
rdc	26
prediction	19
protein_protein_binding	18
resonance_assignment	18
tutorial	18
dynamics	16
normal_mode_analysis	15
allostery	14
chemical	14
rate_determination	14
unfolded_state	14
backbone	13
determination	13
phi_value_analysis	13
prm	13
model	12
pfold	12
ligand-protein-binding	11
nma	11
noe	11
misfolding	10
rate	10
shift	10
flexibility	9
molecular_dynamics	9
noe_assignment	9
protein_structure	9
sba	9
x-ray	9
design	8
docking	8
motion	8
sampling	8
voting	8
database	7
function	7
homology	7
molecular	7
probabilistic_roadmaps	7
rate_prediction	7
rotamer_libraries	7
algorithms	6
alignment	6
conformational	6
ensemble	6
go_model	6
planning	6
protein_protein_interactions	6
rotamer	6
srs	6
unassigned_nmr_data	6
based	5
binding	5
chemical_shift	5
enm	5
ensembles	5
markov_chains	5
monte_carlo	5
nvr	5
programming	5
relaxation	5
resonance	5
scoring	5
sidechain	5
side_chain_flexibility	5
structural	5
4d-noesy	4
analysis	4
coarse_grained	4
denatured	4
drug	4
entropy	4
hiv_integrase	4
hydrogen_exchange	4
inverse_kinematics	4
kinetics	4
learning	4
ligand_flexibility	4
network	4
shifts	4
webserver	4
aggregation	3
backbone_flexibility	3
collision	3
consensus	3
denatured_state	3
diffusion	3
elastic	3
energy	3
enzyme_redesign	3
fast	3
fold_determination	3
gnm	3
integer	3
intermediate	3
linear	3
loop	3
molecular_replacement	3
order	3
parameter	3
pathways	3
protein_structure_prediction	3
python	3
rigidity	3
saxs	3
search	3
simulations	3
teaching	3
torsional_angle	3
transition_state_ensemble	3
acbp	2
annealing	2
ant	2
approximation	2
bipartite_matching	2
cap	2
cheminformatics	2
closure	2
colony	2
comparison	2
contacts	2
corex	2
couplings	2
data	2
detection	2
diversity	2
efficient_energy_minimization	2
energy_landscape	2
equilibrium	2
finkelstein	2
fold	2
fragment	2
funnel	2
genetic	2
gpcr	2
hotspot	2
hp	2
hydrogen_bonds	2
incremental	2
index	2
inverse	2
kinematics	2
kstar	2
landscape	2
lattice	2
ligand	2
markov_random_field	2
mass_spectrometry	2
metadynamics	2
methods	2
mfpt	2
milestoning	2
modeling	2
modelling	2
molecular_mechanics	2
native	2
negative_design	2
noise_stability	2
nrps	2
optimization	2
path	2
phi	2
recognition	2
reference	2
replacement	2
secondary	2
simulated	2
solvation	2
solvent_effects	2
space	2
systems_biology	2
tool	2
transition	2
unfolded	2
value	2
visualization	2
xray	2
advice	1
anisotropic	1
anm	1
assembly	1
atomic	1
averaging	1
bayesian_methods	1
belief	1
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binding_site	1
bpti	1
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calculation	1
c-alpha	1
cdc25	1
charges	1
chevron	1
classification	1
cloud_computing	1
comment	1
communication	1
comparing_different_motion_models	1
complete	1
completeness	1
complex	1
component	1
configurational	1
conformational_sampling	1
constant	1
constraint_satisfaction	1
content	1
croem	1
cryo	1
crystallography	1
cyana	1
d-amino-acid	1
ddg	1
denovo	1
density	1
difference_map	1
dimensionality_reduction	1
dipolar	1
disordered	1
disordered_proteins	1
distance_measure	1
drug_design	1
drug_discovery	1
electron_microscopy	1
electrostatics	1
elnemo	1
em	1
empirical	1
empirical_scoring_function	1
energy_function	1
entropy_estimation	1
equation	1
essential_dynamics	1
evolution	1
example	1
exchange	1
experimental	1
experiments	1
fft	1
finding	1
flexibiliy	1
foldamer	1
folder	1
foldtraj	1
free	1
froda	1
functional_classification	1
function_prediction	1
geometric	1
geometry	1
germany	1
go	1
graph_cuts	1
graph_representation	1
graph_theory	1
hardware	1
hausdorff	1
hd_exchange_rate	1
homologous	1
information	1
initiative	1
inverse_folding	1
kariyer	1
kinetic	1
kl_distance	1
lambda	1
library	1
ligand_binding	1
linguistics	1
local	1
long	1
macromolecular	1
manipulation_planning	1
maps	1
mars	1
master	1
md	1
membrane	1
meta	1
metaheuristics	1
mining	1
mirna	1
mle	1
modeller	1
molecular_design	1
motif	1
mr	1
multidomain	1
multipole	1
multiscale	1
non-holonomic	1
opensource	1
opinion	1
optimum	1
organization	1
paramagnetic_quenching	1
partial	1
pattern	1
pca	1
peptides	1
perspectives	1
placement	1
plot	1
pnas	1
pre	1
principal	1
propagation	1
protein_dna_binding	1
protein_stability	1
psi-value-analysis	1
redcat	1
refinement	1
refolding	1
replica	1
repressor	1
research	1
residue	1
ribosome	1
rna	1
robotics	1
rosetta	1
ruby	1
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sh3	1
simplified	1
software	1
state	1
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svm	1
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tabu	1
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tensor	1
thermodynamic	1
thermodynamics	1
time	1
tools	1
topology	1
ubiquitin	1
umbrella_sampling	1
waiting_time	1
water_hsqc	1
wavelets	1
wide-angle	1

apaydin's assignments [39 articles] Export

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