dfdong's coevolution [27 articles] Export

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

	An analysis of core deformations in protein superfamilies. [My Copy] Biophys J, Vol. 88, No. 2. (February 2005), pp. 1291-1299. by A. Leo-Macias, P. Lopez-Romero, D. Lupyan, D. Zerbino, A. R. Ortiz posted to structure_evolution coevolution by dfdong on 2009-11-30 02:41:50 as along with 8 people and 2 groups apaydin ana barry lna dimka aqeel insectopalo edvin structural_bioinformatics Bioinformatics
	Statistical coevolution analysis and molecular dynamics: identification of amino acid pairs essential for catalysis. [My Copy] Proc Natl Acad Sci U S A, Vol. 102, No. 4. (25 January 2005), pp. 994-999. by R. A. Estabrook, J. Luo, M. M. Purdy, et al.V. Sharma, P. Weakliem, T. C. Bruice, N. O. Reich posted to coevolution by dfdong on 2009-11-28 03:14:30 as along with 5 people and 2 groups ana barry pansapiens dimka gbart structural_bioinformatics Bioinformatics
	On Evolutionary Conservation of Thermodynamic Coupling in Proteins [My Copy] Journal of Biological Chemistry, Vol. 279, No. 18. (30 April 2004), pp. 19046-19050. by Anthony A. Fodor, Richard W. Aldrich posted to coevolution by dfdong on 2009-11-28 02:15:40 as along with 8 people and 2 groups ana barry gbart cjeans tale friendpine ca3295 Lombardo_7 structural_bioinformatics Bioinformatics
	High-confidence prediction of global interactomes based on genome-wide coevolutionary networks. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 105, No. 3. (22 January 2008), pp. 934-939. by David Juan, Florencio Pazos, Alfonso Valencia posted to coevolution by dfdong on 2009-11-26 08:48:14 as along with 18 people and 1 group ptrobajo biomcgary qluo winterschlaefer marti tmmurali brant balicea sebastien_vigneau bluto cjeans aconesa Katje roys friendpine huali mdstobbe paolomarcatili microbiology_nijmegen
	Integration of evolutionary features for the identification of functionally important residues in major facilitator superfamily transporters. [My Copy] PLoS computational biology, Vol. 5, No. 10. (2 October 2009), e1000522. by Jouhyun Jeon, Jae-Seong S. Yang, Sanguk Kim posted to coevolution by dfdong on 2009-11-23 08:49:15 as along with 2 people and 2 groups barriot barry structural_bioinformatics Bioinformatics
	Enhancing the prediction of protein pairings between interacting families using orthology information [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008), 35. by Jose Izarzugaza, David Juan, Carles Pons, Florencio Pazos, Alfonso Valencia posted to ppi coevolution by dfdong on 2009-11-23 08:47:32 as along with 3 people biomcgary chad_davis neils
	Graphical models of protein-protein interaction specificity from correlated mutations and interaction data [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 76, No. 4. (2 February 2009), pp. 911-929. by John Thomas, Naren Ramakrishnan, Chris Bailey-Kellogg posted to ppi coevolution by dfdong on 2009-11-23 08:46:25 as along with 5 people and 2 groups sobolevnrm AliC qluo RebeccaHamer barry Orengo Group Journal Picks baker-group
	Predicting protein interaction interfaces from protein sequences: Case studies of subtilisin and phycocyanin [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 71, No. 3. (2008), pp. 1461-1474. by Bin-Bin Xie, Xiu-Lan Chen, Xi-Ying Zhang, Hai-Lun He, Yu-Zhong Zhang, Bai-Cheng Zhou posted to window coevolution by dfdong on 2009-11-23 08:42:32 as along with 1 person bicko
	Structure, function, and evolution of transient and obligate proteinâprotein interactions [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 102, No. 31. (2 August 2005), pp. 10930-10935. by Julian Mintseris, Zhiping Weng posted to docking complex coevolution coevoluion_interface by dfdong on 2009-11-23 08:11:28 as along with 12 people and 3 groups timg mgomes barry bjorns wiehe julianm bicko chad_davis cjeans Evangelia marti higueruelo structural_bioinformatics ZLAB Bioinformatics
	Mutual Information in Protein Multiple Sequence Alignments Reveals Two Classes of Coevolving Positions† [My Copy] Biochemistry, Vol. 44, No. 19. (1 May 2005), pp. 7156-7165. by Gregory B. Gloor, Louise C. Martin, Lindi M. Wahl, Stanley D. Dunn posted to coevolution by dfdong on 2009-11-23 07:45:26 as along with 3 people jengeldk LeightonP nirfriedman
	Rewiring the specificity of two-component signal transduction systems. [My Copy] Cell, Vol. 133, No. 6. (13 June 2008), pp. 1043-1054. by Jeffrey M. Skerker, Barrett S. Perchuk, Albert Siryaporn, et al.Emma A. Lubin, Orr Ashenberg, Mark Goulian, Michael T. Laub posted to coevolution by dfdong on 2009-11-18 09:22:47 as along with 5 people mgomes robfsouza RebeccaHamer jjray friendpine
	Coevolutionary networks of splicing cis-regulatory elements [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 47. (20 November 2007), pp. 18583-18588. by Xinshu Xiao, Zefeng Wang, Minyoung Jang, Christopher B. Burge posted to window coevolution by dfdong on 2009-11-18 02:40:12 as along with 4 people druvus cjeans oelemento roys
	Regional covariation and its application for predicting protein contact patches [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2009), NA. by YongBai Xu, Elisabeth R. M. Tillier posted to window patch coevolution by dfdong on 2009-11-16 07:10:32 as
	Molecular Coevolution and the Three-Dimensionality of Natural Selection [My Copy] Evolutionary Biology (2009), pp. 237-251. by Mario A. Fares, Christina Toft posted to review coevolution by dfdong on 2009-11-16 07:09:53 as
	A combinatorial approach to detect coevolved amino acid networks in protein families of variable divergence. [My Copy] PLoS computational biology, Vol. 5, No. 9. (4 September 2009), e1000488. by Julie Baussand, Alessandra Carbone posted to tree_path coevolution by dfdong on 2009-11-06 08:39:35 as along with 6 people and 1 group anuragsethi sobolevnrm phoenixzxl maren barry zwang Bioinformatics
	The human protein coevolution network. [My Copy] Genome research, Vol. 19, No. 10. (20 October 2009), pp. 1861-1871. by Elisabeth R. Tillier, Robert L. Charlebois posted to sequence_weighting ppi coevolution by dfdong on 2009-11-06 08:33:01 as along with 7 people Garamonfok venancio jperkins TRHvidsten djkt phoenixzxl tmmurali
	An evolutionarily conserved network of amino acids mediates gating in voltage-dependent potassium channels. [My Copy] Journal of molecular biology, Vol. 340, No. 2. (2 July 2004), pp. 307-318. by Sarel J. Fleishman, Ofer Yifrach, Nir Ben-Tal posted to tree_path predict coevolution by dfdong on 2009-11-04 08:10:19 as along with 3 people qluo cjeans mingzhi
	A pair-to-pair amino acids substitution matrix and its applications for protein structure prediction. [My Copy] Proteins, Vol. 67, No. 1. (1 April 2007), pp. 142-153. by E. Eyal, M. Frenkel-Morgenstern, V. Sobolev, S. Pietrokovski posted to sequence_weighting coevolution aagrouping aacontact by dfdong on 2009-11-04 03:29:38 as along with 5 people qluo RebeccaHamer bicko cjeans Lombardo_7
	Detecting coevolution without phylogenetic trees? Tree-ignorant metrics of coevolution perform as well as tree-aware metrics [My Copy] BMC Evolutionary Biology, Vol. 8, No. 1. (03 December 2008), 327. by J. Gregory Caporaso, Sandra Smit, Brett Easton, Lawrence Hunter, Gavin Huttley, Rob Knight posted to sequence_weighting predict coevolution by dfdong on 2009-11-04 03:26:15 as along with 4 people and 1 group mgomes qluo sjcockell djkt iSEEM
	Detecting compensatory covariation signals in protein evolution using reconstructed ancestral sequences. [My Copy] Journal of molecular biology, Vol. 319, No. 3. (7 June 2002), pp. 729-743. by K. Fukami-Kobayashi, D. R. Schreiber, S. A. Benner posted to tree_path predict coevolution by dfdong on 2009-11-04 03:25:40 as along with 3 people chica qluo ramensky
	In silico two-hybrid system for the selection of physically interacting protein pairs [My Copy] Proteins: Structure, Function, and Genetics, Vol. 47, No. 2. (2002), pp. 219-227. by Florencio Pazos, Alfonso Valencia posted to predict ppi coevolution by dfdong on 2009-11-04 03:24:54 as along with 3 people qluo Robinder tale
	Influence of conservation on calculations of amino acid covariance in multiple sequence alignments. [My Copy] Proteins, Vol. 56, No. 2. (1 August 2004), pp. 211-221. by Anthony A. Fodor, Richard W. Aldrich posted to coevolution analysis by dfdong on 2009-11-04 03:23:55 as along with 10 people and 2 groups mgomes qluo RebeccaHamer ana gbart cjeans jlh64 mingzhi dgront Lombardo_7 structural_bioinformatics Bioinformatics
	ISIS: interaction sites identified from sequence. [My Copy] Bioinformatics (Oxford, England), Vol. 23, No. 2. (15 January 2007), pp. e13-16. by Yanay Ofran, Burkhard Rost posted to predict docking coevolution by dfdong on 2009-11-04 03:23:25 as along with 2 people bicko qluo
	Prediction of interface residues in protein-protein complexes by a consensus neural network method: test against NMR data. [My Copy] Proteins. , Vol. 61, No. 1. (1 October 2005), pp. 21-35. by H. Chen, H. X. Zhou posted to predict ml docking complex coevolution by dfdong on 2009-11-04 03:23:02 as along with 2 people qluo karbak
	Prediction of Protein-Protein Interface Residues Using Sequence Neighborhood and Surface Properties [My Copy] Advances in Neural Networks - ISNN 2006 (2006), pp. 660-666. by Yasir Arafat, Joarder Kamruzzaman, Gour Karmakar posted to window predict complex coevolution by dfdong on 2009-11-04 03:22:03 as along with 1 person qluo
	Robust signals of coevolution of interacting residues in mammalian proteomes identified by phylogeny-aided structural analysis. [My Copy] Nature genetics, Vol. 37, No. 12. (13 December 2005), pp. 1367-1371. by Sun Shim S. Choi, Weimin Li, Bruce T. Lahn posted to contact coevolution analysis by dfdong on 2009-11-04 02:12:24 as along with 3 people and 1 group stevanspringer bicko mingzhi FAB-lab
	Coevolution at protein complex interfaces can be detected by the complementarity trace with important impact for predictive docking [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 22. (3 June 2008), pp. 7708-7713. by Hocine Madaoui, RaphaÃ«l Guerois posted to docking complex coevolution by dfdong on 2009-11-02 06:46:19 as along with 8 people qluo robfsouza RebeccaHamer orr cabbagesofdoom phoenixzxl bicko zwang

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structure_evolution	53
second_evolution	35
coevolution	27
docking	22
predict	19
complex	13
screen	10
tool	10
polymerase	9
window	7
folding	7
review	7
tree_path	6
ortholog	6
genome_wide	5
drosophilar	5
ppi	5
analysis	5
coevoluion_interface	4
evolution	4
contact	4
window_contact	4
immune	4
aagrouping	3
patch	3
sequence_weighting	3
database	3
folding_evolution	3
check	2
study	2
ml	2
segment	2
seq_interface	2
hmm	2
function_site	2
xray	2
phylip	1
decoy	1
conservation	1
stabilization_center	1
ddi	1
aacontact	1
motif	1
disorder	1
ancestor	1

dfdong's coevolution [27 articles] Export

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