chad_davis's complexes [80 articles] Export

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	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
	An evolutionary and structural characterization of mammalian protein complex organization. [My Copy] BMC genomics, Vol. 9, No. 1. (23 December 2008) by Philip Wong, Sonja Althammer, Andrea Hildebrand, et al.Andreas Kirschner, Philipp Pagel, Bernd Geissler, Pawel Smialowski, Florian Blöchl, Matthias Oesterheld, Thorsten Schmidt, Normann Strack, Fabian J. Theis, Andreas Ruepp, Dmitrij Frishman posted to complexes evolution ppi proj_assembly structure by chad_davis on 2008-12-26 21:54:40 as along with 3 people chica zwang phoenixzxl
	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
	The archaeal exosome core is a hexameric ring structure with three catalytic subunits [My Copy] Nature Structural & Molecular Biology, Vol. 12, No. 7. (12 June 2005), pp. 575-581. by Esben Lorentzen, Pamela Walter, Sebastien Fribourg, Elena Evguenieva-Hackenberg, Gabriele Klug, Elena Conti posted to classic complexes embl evolution experimental proj_assembly structure by chad_davis on 2008-12-22 13:11:34 as
	Age-Dependent Evolution of the Yeast Protein Interaction Network Suggests a Limited Role of Gene Duplication and Divergence [My Copy] PLoS Comput Biol, Vol. 4, No. 11. (28 November 2008), e1000232. by Wan K. Kim, Edward M. Marcotte posted to complexes evolution networks ppi proj_assembly proj_interprets statistics validation by chad_davis on 2008-12-19 09:35:41 as along with 7 people wangbo dakelley biomcgary cabbagesofdoom grahamc bpcusack tmmurali
	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
	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
	MODBASE, a database of annotated comparative protein structure models and associated resources. [My Copy] Nucleic acids research, Vol. 37, No. Database issue. (23 January 2009) by Ursula Pieper, Narayanan Eswar, Ben M. Webb, et al.David Eramian, Libusha Kelly, David T. Barkan, Hannah Carter, Parminder Mankoo, Rachel Karchin, Marc A. Marti-Renom, Fred P. Davis, Andrej Sali posted to classic complexes database modelling ppi proj_assembly service structure by chad_davis on 2008-10-27 12:47:02 as along with 3 people tjimenez noraziz medic0747
	CORUM: the comprehensive resource of mammalian protein complexes. [My Copy] Nucleic acids research, Vol. 36, No. Database issue. (11 January 2008), pp. D646-650. by Andreas Ruepp, Barbara Brauner, Irmtraud Dunger-Kaltenbach, et al.Goar Frishman, Corinna Montrone, Michael Stransky, Brigitte Waegele, Thorsten Schmidt, Octave Noubibou N. Doudieu, Volker Stümpflen, H. Werner Mewes posted to annotation complexes database ppi proj_assembly by chad_davis on 2008-10-20 13:57:58 as along with 6 people dragonrez poirel carlk tmmurali guhjy shung
	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
	Assembly reflects evolution of protein complexes. [My Copy] Nature, Vol. 453, No. 7199. (26 June 2008), pp. 1262-1265. by Emmanuel D. Levy, Elisabetta B. Erba, Carol V. Robinson, Sarah A. Teichmann posted to complexes evolution experimental ppi proj_assembly structure by chad_davis on 2008-10-14 14:51:52 as along with 11 people and 1 group robfsouza chica noraziz psique marck paulschlesinger neils jwm zwang faion phoenixzxl KeatingJClub
	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
	Modifying the DPClus algorithm for identifying protein complexes based on new topological structures [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008) by Min Li, Jianer Chen, Jianxin Wang, Bin Hu, Gang Chen posted to algorithm clustering complexes download networks proj_assembly by chad_davis on 2008-10-09 15:22:18 as along with 2 people diamantis neils
	Protein Structure Fitting and Refinement Guided by Cryo-EM Density [My Copy] Structure, Vol. 16, No. 2. (12 February 2008), pp. 295-307. by Maya Topf, Keren Lasker, Ben Webb, Haim Wolfson, Wah Chiu, Andrej Sali posted to algorithm complexes data_integration modelling proj_assembly structure by chad_davis on 2008-10-08 16:10:16 as along with 1 person and 1 group noraziz KeatingJClub
	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
	United we stand: combining structural methods [My Copy] Current Opinion in Structural Biology, Vol. In Press, Corrected Proof by Nathan P. Cowieson, Bostjan Kobe, Jennifer L. Martin posted to complexes data_integration proj_assembly review structure by chad_davis on 2008-09-13 10:54:58 as along with 2 people dgront paulschlesinger
	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
	Protein Complex Evolution Does Not Involve Extensive Network Rewiring [My Copy] PLoS Comput Biol, Vol. 4, No. 7. (25 July 2008), e1000132. by Teunis J. van Dam, Berend Snel posted to complexes evolution proj_assembly structure by chad_davis on 2008-08-07 15:58:06 as along with 4 people zufar noraziz phoenixzxl cabbagesofdoom
	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
	ProCope - Protein Complex Prediction and Evaluation [My Copy] Bioinformatics (17 July 2008), btn376. by Jan Krumsiek, Caroline C. Friedel, Ralf Zimmer posted to algorithm complexes data_integration proj_assembly structure toolkit service by chad_davis on 2008-08-03 22:03:17 as along with 4 people carlk saket zwang guhjy
	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
	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
	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
	Simple fold composition and modular architecture of the nuclear pore complex. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 103, No. 7. (14 February 2006), pp. 2172-2177. by D. Devos, S. Dokudovskaya, R. Williams, et al.F. Alber, N. Eswar, B. T. Chait, M. P. Rout, A. Sali posted to complexes embl evolution modelling structure by chad_davis on 2008-06-27 14:31:05 as
	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
	Structural characterization of components of protein assemblies by comparative modeling and electron cryo-microscopy. [My Copy] Journal of structural biology, Vol. 149, No. 2. (February 2005), pp. 191-203. by M. Topf, M. L. Baker, B. John, W. Chiu, A. Sali posted to algorithm alignment complexes data_integration modelling proj_assembly structure by chad_davis on 2008-05-28 10:37:06 as along with 1 person and 1 group gcaltabiano structural_bioinformatics
	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
	Incorporating high-throughput proteomics experiments into structural biology pipelines: Identification of the low-hanging fruits. [My Copy] Proteomics, Vol. 8, No. 10. (19 May 2008), pp. 1959-1964. by Roland A. A. Pache, Patrick Aloy posted to complexes embl proj_assembly structure yeast by chad_davis on 2008-05-25 01:26:08 as
	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
	Integrating Diverse Data for Structure Determination of Macromolecular Assemblies [My Copy] Annual Review of Biochemistry, Vol. 77, No. 1. (4 March 2008), pp. 443-477. by Frank Alber, Friedrich Förster, Dmitry Korkin, Maya Topf, Andrej Sali posted to algorithm complexes data_integration modelling proj_assembly review structure by chad_davis on 2008-03-10 08:49:35 as along with 5 people mijam kgutwin carlk noraziz phoenixzxl
	M-TASSER: an algorithm for protein quaternary structure prediction. [My Copy] Biophys J, Vol. 94, No. 3. (1 February 2008), pp. 918-928. by H. Chen, J. Skolnick posted to algorithm complexes proj_assembly structure by chad_davis on 2008-02-28 16:31:45 as
	Components of coated vesicles and nuclear pore complexes share a common molecular architecture. [My Copy] PLoS biology, Vol. 2, No. 12. (1 December 2004), e380. by Damien Devos, Svetlana Dokudovskaya, Frank Alber, et al.Rosemary Williams, Brian T. Chait, Andrej Sali, Michael P. Rout posted to complexes embl evolution structure by chad_davis on 2008-02-21 12:32:21 as
	PROTCOM: searchable database of protein complexes enhanced with domain-domain structures. [My Copy] Nucleic acids research, Vol. 35, No. Database issue. (January 2007) by P. J. Kundrotas, E. Alexov posted to complexes database by chad_davis on 2008-01-15 17:53:29 as along with 3 people carlk higueruelo bicko
	IPPRED: server for proteins interactions inference. [My Copy] Bioinformatics, Vol. 19, No. 7. (1 May 2003), pp. 903-904. by N. Goffard, V. Garcia, F. Iragne, A. Groppi, A. de Daruvar posted to complexes algorithm binding by chad_davis on 2008-01-10 18:07:08 as along with 1 person bicko

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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

chad_davis's complexes [80 articles] Export

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