chad_davis's binding [152 articles] Export

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	ProtorP: A Protein-Protein Interaction Analysis Server [My Copy] Bioinformatics (11 November 2008), btn584. by Christopher Reynolds, David Damerell, Susan Jones posted to annotation binding proj_assembly proj_interprets service structure by chad_davis on 2009-01-31 18:25:28 as along with 7 people and 1 group idoerg bicko barry behindtherabbit neils kshameer hugowill structural_bioinformatics
	HADDOCK versus HADDOCK: new features and performance of HADDOCK2.0 on the CAPRI targets. [My Copy] Proteins, Vol. 69, No. 4. (1 December 2007), pp. 726-733. by S. J. de Vries, A. D. van Dijk, M. Krzeminski, et al.M. van Dijk, A. Thureau, V. Hsu, T. Wassenaar, A. M. Bonvin posted to algorithm binding complexes docking download modelling ppi proj_assembly structure by chad_davis on 2009-01-14 13:39:14 as along with 1 person martainn
	HADDOCK: A Protein−Protein Docking Approach Based on Biochemical or Biophysical Information [My Copy] Journal of the American Chemical Society, Vol. 125, No. 7. (1 February 2003), pp. 1731-1737. by Cyril Dominguez, Rolf Boelens, Alexandre M. J. J. Bonvin posted to algorithm binding complexes docking download modelling ppi proj_assembly proj_interprets structure by chad_davis on 2009-01-14 13:34:03 as along with 10 people bmduggan laurabailey A_Coletta_Thesis betainverse dgruiz bicko bluvsh1 gloria ruvido yalexeev
	Malleable machines in transcription regulation: the mediator complex. [My Copy] PLoS computational biology, Vol. 4, No. 12. (December 2008) by A. Tóth-Petróczy, C. J. Oldfield, I. Simon, et al.Y. Takagi, A. K. Dunker, V. N. Uversky, M. Fuxreiter posted to binding complexes disorder ppi proj_assembly proj_disocons structure by chad_davis on 2008-12-26 21:41:43 as along with 2 people siebert akraemer
	Association rate constants of ras-effector interactions are evolutionarily conserved. [My Copy] PLoS computational biology, Vol. 4, No. 12. (December 2008) by C. Kiel, D. Aydin, L. Serrano posted to binding complexes embl evolution ppi structure by chad_davis on 2008-12-26 21:31:29 as along with 2 people barry ras
	A dataset of protein-protein interfaces generated with a sequence-order-independent comparison technique. [My Copy] J Mol Biol, Vol. 260, No. 4. (26 July 1996), pp. 604-620. by C. J. Tsai, S. L. Lin, H. J. Wolfson, R. Nussinov posted to algorithm binding classic complexes database non-redundant ppi proj_assembly proj_interprets statistics structure by chad_davis on 2008-12-18 22:10:13 as along with 1 person bicko
	Residue contact-count potentials are as effective as residue-residue contact-type potentials for ranking protein decoys. [My Copy] BMC structural biology, Vol. 8 (08 December 2008), 53. by Dan M. Bolser, Ioannis Filippis, Henning Stehr, Jose Duarte, Michael Lappe posted to algorithm binding feature_selection ppi proj_interprets statistics structure validation by chad_davis on 2008-12-18 20:51:09 as along with 3 people tcschen RamuAnandakrishnan krapnik
	The self-assembly and evolution of homomeric protein complexes [My Copy] (22 Nov 2008) by Gabriel Villar, Alex W. Wilber, Alex J. Williamson, et al.Parvinder Thiara, Jonathan P. K. Doye, Ard A. Louis, Mara N. Jochum, Anna C. F. Lewis, Emmanuel D. Levy posted to binding complexes evolution modelling ppi proj_assembly structure by chad_davis on 2008-12-18 20:23:39 as
	3did Update: domain-domain and peptide-mediated interactions of known 3D structure. [My Copy] Nucleic acids research (25 October 2008) by Amelie Stein, Alejandro Panjkovich, Patrick Aloy posted to binding classic database embl ppi proj_assembly proj_interprets by chad_davis on 2008-10-29 16:29:48 as
	Inferring protein domain interactions from databases of interacting proteins. [My Copy] Genome Biol, Vol. 6, No. 10. (2005) by R. Riley, C. Lee, C. Sabatti, D. Eisenberg posted to algorithm binding ppi proj_assembly proj_interprets statistics structure validation by chad_davis on 2008-10-20 12:49:20 as along with 4 people maryee j3xucite iris_2001 phoenixzxl
	An integrative approach for predicting interactions of protein regions. [My Copy] Bioinformatics (Oxford, England), Vol. 24, No. 16. (15 August 2008) by Sven-Eric E. Schelhorn, Thomas Lengauer, Mario Albrecht posted to algorithm binding complexes ppi proj_assembly proj_interprets structure by chad_davis on 2008-10-16 13:59:56 as along with 1 person kgutwin
	The unfoldomics decade: an update on intrinsically disordered proteins. [My Copy] BMC genomics, Vol. 9 Suppl 2 (2008) by A. K. Dunker, C. J. Oldfield, J. Meng, et al.P. Romero, J. Y. Yang, J. W. Chen, V. Vacic, Z. Obradovic, V. N. Uversky posted to binding disorder ppi proj_disocons review structure by chad_davis on 2008-10-10 17:17:41 as along with 6 people kiekyon niallhaslam robfsouza carlosjavierna guhjy higueruelo
	Homology modelling of protein-protein complexes: a simple method and its possibilities and limitations [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008) by Guillaume Launay, Thomas Simonson posted to algorithm binding complexes modelling proj_assembly structure by chad_davis on 2008-10-10 07:36:29 as along with 1 person lptolik
	Optimal contact map alignment of protein-protein interfaces. [My Copy] Bioinformatics (Oxford, England), Vol. 24, No. 20. (15 October 2008), pp. 2324-2328. by V. Pulim, B. Berger, J. Bienkowska posted to algorithm alignment binding complexes ppi proj_interprets structure by chad_davis on 2008-10-09 18:28:32 as along with 1 person i000
	Structural characterization of assemblies from overall shape and subcomplex compositions. [My Copy] Structure, Vol. 13, No. 3. (March 2005), pp. 435-445. by F. Alber, M. F. Kim, A. Sali posted to algorithm binding complexes data_integration modelling ppi proj_assembly structure by chad_davis on 2008-10-08 15:51:24 as along with 1 person faion
	PRISM: protein interactions by structural matching. [My Copy] Nucleic acids research, Vol. 33, No. Web Server issue. (1 July 2005) by U. Ogmen, O. Keskin, A. S. Aytuna, R. Nussinov, A. Gursoy posted to algorithm binding ppi proj_assembly proj_interprets structure service by chad_davis on 2008-10-07 10:15:00 as along with 4 people apaydin bicko j3xucite henschel
	In different organisms, the mode of interaction between two signaling proteins is not necessarily conserved. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 101, No. 32. (10 August 2004), pp. 11646-11651. by S. Y. Park, B. D. Beel, M. I. Simon, A. M. Bilwes, B. R. Crane posted to binding evolution proj_interprets structure validation by chad_davis on 2008-09-17 16:56:13 as along with 3 people chica bicko RebeccaHamer
	Comprehensive inventory of protein complexes in the Protein Data Bank from consistent classification of interfaces. [My Copy] BMC bioinformatics, Vol. 9, No. 1. (2008) by Andrew Bordner, Andrey Gorin posted to annotation binding clustering database non-redundant proj_assembly proj_interprets structure service by chad_davis on 2008-09-16 10:09:39 as along with 6 people somak bicko robfsouza guhjy neils phoenixzxl
	HOMCOS: a server to predict interacting protein pairs and interacting sites by homology modeling of complex structures. [My Copy] Nucleic acids research, Vol. 36, No. Web Server issue. (1 July 2008) by N. Fukuhara, T. Kawabata posted to binding algorithm complexes modelling proj_assembly structure service by chad_davis on 2008-08-21 16:31:17 as along with 2 people bicko guhjy
	Energetics of protein-protein interactions: analysis of the barnase-barstar interface by single mutations and double mutant cycles. [My Copy] Journal of molecular biology, Vol. 248, No. 2. (28 April 1995), pp. 478-486. by G. Schreiber, A. R. Fersht posted to chemistry classic complexes experimental proj_interprets structure binding by chad_davis on 2008-08-08 17:25:37 as along with 1 person bicko
	Ensemble Non-negative Matrix Factorization Methods for Clustering Protein-Protein Interactions [My Copy] Bioinformatics (12 June 2008), btn286. by Derek Greene, Gerard Cagney, Nevan Krogan, Padraig Cunningham posted to algorithm clustering complexes ensemble proj_assembly binding by chad_davis on 2008-08-05 15:26:09 as along with 4 people colmryan svozil zwang grahamc
	Understanding and Predicting Protein Assemblies With 3D Structures. [My Copy] Comparative and functional genomics, Vol. 4, No. 4. (2003), pp. 410-415. by P. Aloy, R. B. Russell posted to algorithm classic complexes data_integration embl modelling proj_assembly structure binding by chad_davis on 2008-08-03 18:17:16 as
	MSDmotif: exploring protein sites and motifs [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008), 312. by Adel Golovin, Kim Henrick posted to algorithm complexes database data_integration drug embl structure binding service by chad_davis on 2008-07-17 16:18:19 as along with 6 people pansapiens HawkinsJohnC tjimenez reyez massivemayhem Evangelia
	Peptide-mediated interactions in biological systems: new discoveries and applications. [My Copy] Current opinion in biotechnology (1 July 2008) by Evangelia Petsalaki, Robert B. B. Russell posted to embl review structure binding by chad_davis on 2008-07-14 12:54:41 as along with 2 people zdai jteyra
	Inference of macromolecular assemblies from crystalline state. [My Copy] Journal of molecular biology, Vol. 372, No. 3. (21 September 2007), pp. 774-797. by E. Krissinel, K. Henrick posted to algorithm annotation complexes database embl proj_assembly structure validation binding service by chad_davis on 2008-07-13 16:28:44 as along with 3 people marti rico bicko
	Bacterial cell division protein FtsZ assembles into protofilament sheets and minirings, structural homologs of tubulin polymers. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 93, No. 1. (9 January 1996), pp. 519-523. by H. P. Erickson, D. W. Taylor, K. A. Taylor, D. Bramhill posted to complexes proj_assembly structure binding by chad_davis on 2008-07-07 16:07:55 as
	Statistical Analysis of Interface Similarity in Crystals of Homologous Proteins. [My Copy] Journal of molecular biology (7 June 2008) by Qifang Xu, Adrian A. A. Canutescu, Guoli Wang, Maxim Shapovalov, Zoran Obradovic, Roland L. L. Dunbrack posted to complexes database data_integration evolution proj_interprets structure validation binding by chad_davis on 2008-07-06 20:22:42 as along with 4 people robfsouza svozil kintoki bicko
	PSIbase: a database of Protein Structural Interactome map (PSIMAP) [My Copy] Bioinformatics, Vol. 21, No. 10. (15 May 2005), pp. 2541-2543. by Sungsam Gong, Giseok Yoon, Insoo Jang, et al.Dan Bolser, Panos Dafas, Michael Schroeder, Hansol Choi, Yoobok Cho, Kyungsook Han, Sunghoon Lee, Hwanho Choi, Michael Lappe, Liisa Holm, Sangsoo Kim, Donghoon Oh, Jonghwa Bhak posted to algorithm database proj_assembly structure binding service by chad_davis on 2008-07-01 14:43:04 as along with 1 person medic0747
	The role of disorder in interaction networks: a structural analysis [My Copy] Molecular Systems Biology, Vol. 4 (25 March 2008) by Philip M. Kim, Andrea Sboner, Yu Xia, Mark Gerstein posted to disorder networks proj_disocons structure yeast binding by chad_davis on 2008-06-30 10:59:42 as along with 7 people mgomes pablocarb zwang bootsy biomcgary maralena phoenixzxl
	Homology-based modeling of 3D structures of protein-protein complexes using alignments of modified sequence profiles. [My Copy] International journal of biological macromolecules (21 May 2008) by Petras J. J. Kundrotas, Marc F. F. Lensink, Emil Alexov posted to algorithm alignment complexes data_integration modelling proj_assembly structure binding by chad_davis on 2008-06-29 11:15:36 as along with 1 group structural_bioinformatics
	Using indirect protein-protein interactions for protein complex prediction. [My Copy] Journal of bioinformatics and computational biology, Vol. 6, No. 3. (June 2008), pp. 435-466. by H. N. Chua, K. Ning, W. K. Sung, H. W. Leong, L. Wong posted to algorithm clustering complexes networks proj_assembly binding by chad_davis on 2008-06-29 11:14:25 as
	Systematic discovery of in vivo phosphorylation networks. [My Copy] Cell, Vol. 129, No. 7. (29 June 2007), pp. 1415-1426. by R. Linding, L. J. Jensen, G. J. Ostheimer, et al.M. A. van Vugt, C. Jørgensen, I. M. Miron, F. Diella, K. Colwill, L. Taylor, K. Elder, P. Metalnikov, V. Nguyen, A. Pasculescu, J. Jin, J. G. Park, L. D. Samson, J. R. Woodgett, R. B. Russell, P. Bork, M. B. Yaffe, T. Pawson posted to algorithm data_integration embl networks binding by chad_davis on 2008-06-20 11:13:19 as along with 21 people and 2 groups rsaito jaimie nzm nedwards MatthiasReimann ptrobajo guhjy skhadar julius zwang cdppublications lp2 psique robrussell snowcrash larsjuhljensen Evangelia renatomilani carlk daed bouncingbudha SysbioMPI-TCells Durbin group
	Taking advantage of local structure descriptors to analyze interresidue contacts in protein structures and protein complexes [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA. by Juliette Martin, Leslie Regad, Catherine Etchebest, Anne C. Camproux posted to algorithm complexes feature_selection proj_assembly proj_interprets statistics structure binding by chad_davis on 2008-06-15 13:54:46 as
	Role of intrinsic disorder in transient interactions of hub proteins. [My Copy] Proteins, Vol. 66, No. 4. (1 March 2007), pp. 761-765. by G. P. Singh, M. Ganapathi, D. Dash posted to complexes disorder networks proj_disocons binding by chad_davis on 2008-06-15 13:40:59 as along with 1 person agustinarce
	Eukaryotic transcription factor binding sites--modeling and integrative search methods. [My Copy] Bioinformatics (Oxford, England), Vol. 24, No. 11. (1 April 2008), pp. 1325-1331. by Sridhar Hannenhalli posted to gene_regulation proj_credo review binding by chad_davis on 2008-06-15 13:35:43 as along with 14 people fenghezi isimpson wowalz cassj druvus nklee oannes hplatero maximilianh heliopais bootsy Ema sameetmehta guhjy
	Understanding eukaryotic linear motifs and their role in cell signaling and regulation. [My Copy] Frontiers in bioscience : a journal and virtual library, Vol. 13 (2008), pp. 6580-6603. by F. Diella, N. Haslam, C. Chica, et al.A. Budd, S. Michael, N. P. Brown, G. Trave, T. J. Gibson posted to disorder embl review binding by chad_davis on 2008-06-01 12:04:07 as along with 3 people chica niallhaslam cabbagesofdoom
	Structural modeling of protein interactions by analogy: application to PSD-95. [My Copy] PLoS Comput Biol, Vol. 2, No. 11. (10 November 2006) by D. Korkin, F. P. Davis, F. Alber, et al.T. Luong, M. Y. Shen, V. Lucic, M. B. Kennedy, A. Sali posted to algorithm complexes docking modelling proj_assembly structure binding by chad_davis on 2008-05-28 10:32:13 as along with 1 person and 1 group bicko structural_bioinformatics
	Combinatorial docking approach for structure prediction of large proteins and multi-molecular assemblies. [My Copy] Phys Biol, Vol. 2, No. 4. (November 2005) by Y. Inbar, H. Benyamini, R. Nussinov, H. J. Wolfson posted to algorithm complexes docking download modelling proj_assembly structure binding by chad_davis on 2008-05-28 10:23:55 as along with 1 person bicko
	The elusive yeast interactome. [My Copy] Genome Biol, Vol. 7, No. 6. (2006) by J. Goll, P. Uetz posted to complexes experimental networks proj_assembly review yeast binding by chad_davis on 2008-05-05 09:11:33 as along with 3 people maryee eukfn Evangelia
	An analysis of conformational changes on proteinprotein association: implications for predictive docking [My Copy] Protein Eng., Vol. 12, No. 4. (1 April 1999), pp. 271-283. by M. J. Betts, M. J. Sternberg posted to complexes docking embl structure binding by chad_davis on 2008-05-04 15:32:44 as along with 4 people boris_aguilar mijogiffin bicko ffranca
	From pull-down data to protein interaction networks and com-plexes with biological relevance. [My Copy] Bioinformatics (26 February 2008) by Bing Zhang, Byung, Tatiana Karpinets, Nagiza F. F. Samatova posted to algorithm complexes networks proj_assembly binding by chad_davis on 2008-04-22 12:02:54 as along with 4 people guhjy grahamc kluck carlk
	Subunit architecture of multimeric complexes isolated directly from cells [My Copy] EMBO Reports, Vol. aop, No. current. (18 August 2006) by Helena Hernandez, Andrzej Dziembowski, Thomas Taverner, Bertrand Seraphin, Carol V. Robinson posted to classic complexes experimental networks proj_assembly structure yeast binding by chad_davis on 2008-04-21 14:01:55 as along with 1 person faion
	Biological units and their effect upon the properties and prediction of protein-protein interactions. [My Copy] J Mol Biol, Vol. 364, No. 5. (15 December 2006), pp. 1118-1129. by E. R. Jefferson, T. P. Walsh, G. J. Barton posted to annotation clustering complexes data_integration non-redundant proj_assembly review structure binding by chad_davis on 2008-04-21 12:40:18 as along with 1 person bicko
	Real-Time Monitoring of Protein Complexes Reveals their Quaternary Organization and Dynamics. [My Copy] Chemistry & biology, Vol. 15, No. 3. (March 2008), pp. 246-253. by A. J. Painter, N. Jaya, E. Basha, E. Vierling, C. V. Robinson, J. L. Benesch posted to chemistry complexes experimental proj_assembly binding by chad_davis on 2008-04-16 17:24:51 as
	Subunit Architecture of Intact Protein Complexes from Mass Spectrometry and Homology Modeling [My Copy] Acc. Chem. Res. (4 March 2008) by Thomas Taverner, Helena Hernandez, Michal Sharon, et al.Brandon T. Ruotolo, Dijana M. Vinkovic, Damien Devos, Robert B. Russell, Carol V. Robinson posted to algorithm complexes embl experimental modelling networks proj_assembly structure yeast binding by chad_davis on 2008-03-10 08:53:48 as along with 1 person faion
	Annotation transfer between genomes: protein-protein interologs and protein-DNA regulogs. [My Copy] Genome research, Vol. 14, No. 6. (June 2004), pp. 1107-1118. by H. Yu, N. M. Luscombe, H. X. Lu, et al.X. Zhu, Y. Xia, J. D. Han, N. Bertin, S. Chung, M. Vidal, M. Gerstein posted to evolution binding by chad_davis on 2008-02-29 15:09:39 as along with 12 people and 1 group kiekyon rsaito thegoose2 robfsouza carlk tharris bicko dragonrez balajis koller cjeans cerca C. elegans / WormBase
	A careful disorderliness in the proteome: sites for interaction and targets for future therapies. [My Copy] FEBS letters, Vol. 582, No. 8. (9 February 2008), pp. 1271-1275. by Robert B. B. Russell, Toby J. J. Gibson posted to disorder drug embl binding by chad_davis on 2008-02-25 10:34:04 as along with 7 people niallhaslam cat_hutchinson68 guhjy Evangelia robrussell higueruelo kluck
	Mapping protein family interactions: intramolecular and intermolecular protein family interaction repertoires in the PDB and yeast. [My Copy] J Mol Biol, Vol. 307, No. 3. (30 March 2001), pp. 929-938. by J. Park, M. Lappe, S. A. Teichmann posted to clustering networks non-redundant structure yeast database binding by chad_davis on 2008-02-19 13:36:37 as along with 5 people and 2 groups medic0747 ronkeliz ana tjimenez cjeans structural_bioinformatics Bioinformatics
	An iterative knowledge-based scoring function for protein-protein recognition [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA. by Sheng Y. Huang, Xiaoqin Zou posted to algorithm binding docking proj_interprets statistics structure by chad_davis on 2008-02-05 09:54:41 as along with 1 person and 2 groups whitead Jiang Research Group structural_bioinformatics
	NOXclass: prediction of protein-protein interaction types. [My Copy] BMC Bioinformatics, Vol. 7 (2006) by H. Zhu, F. S. Domingues, I. Sommer, T. Lengauer posted to classification feature_selection algorithm binding by chad_davis on 2008-01-24 16:30:44 as along with 4 people bicko conkymacro marti jteyra

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structure	236
binding	152
algorithm	136
review	112
embl	98
proj_disocons	82
database	81
complexes	80
classic	79
classification	79
proj_assembly	66
evolution	64
statistics	64
networks	58
disorder	53
modelling	49
service	46
feature_selection	44
ppi	42
proj_credo	40
data_integration	36
download	36
gene_regulation	30
yeast	29
annotation	28
proj_interprets	27
toolkit	25
validation	24
clustering	22
experimental	20
alignment	19
microarray	18
disease	16
chemistry	15
non-redundant	12
proj_stabperf	11
ensemble	10
data_mining	9
mpi	9
docking	8
drug	7
proj_cct	6
proj_bachelor	4
distributed	3

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