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	Specificity in protein interactions and its relationship with sequence diversity and coevolution [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 19. (8 May 2007), pp. 7999-8004. by Luke Hakes, Simon C. Lovell, Stephen G. Oliver, David L. Robertson posted by 17 people mgomes chica diamantis dullhunk marti stevanspringer bjorns cjeans zwang Garamonfok cursonivel1 tale winterschlaefer FAB-lab cursonivel1 phoenixzxl chrys
	Phylogenetic Methodology for Detecting Protein Interactions [My Copy] Mol Biol Evol, Vol. 24, No. 3. (1 March 2007), pp. 650-659. by Peter J. Waddell, Hirohisa Kishino, Rissa Ota posted by 4 people stevanspringer zwang tale FAB-lab
	Predicting new molecular targets for known drugs [My Copy] Nature, Vol. 462, No. 7270. (01 November 2009), pp. 175-181. by Michael J. Keiser, Vincent Setola, John J. Irwin, et al.Christian Laggner, Atheir I. Abbas, Sandra J. Hufeisen, Niels H. Jensen, Michael B. Kuijer, Roberto C. Matos, Thuy B. Tran, Ryan Whaley, Richard A. Glennon, Jerome Hert, Kelan L. H. Thomas, Douglas D. Edwards, Brian K. Shoichet, Bryan L. Roth posted by 16 people venancio okapi Journal picks ahmetbakan zufar pablocarb zwang TRHvidsten phoenixzxl qshao Yanno mnishimu tmmurali sjcockell seb1 abhishek_tiwari
	Prediction of hot spot residues at protein-protein interfaces by combining machine learning and energy-based methods [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (30 October 2009), 365. by Stefano Lise, Cedric Archambeau, Massimiliano Pontil, David Jones posted by 8 people Orengo Group Journal Picks sillitoe apaydin kshameer zwang phoenixzxl higueruelo neils
	Structure of Protein Interaction Networks and Their Implications on Drug Design [My Copy] PLoS Comput Biol, Vol. 5, No. 10. (30 October 2009), e1000550. by Takeshi Hase, Hiroshi Tanaka, Yasuhiro Suzuki, So Nakagawa, Hiroaki Kitano posted by 11 people kiekyon nickolay kshameer zwang phoenixzxl venancio Orengo Group Journal Picks CorinYeats ess30 poirel jbesnard
	Clustering of protein domains for functional and evolutionary studies. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 335. by Pavle Goldstein, Jurica Zucko, Dusica Vujaklija, et al.Anita Krisko, Daslav Hranueli, Paul F. Long, Catherine Etchebest, Bojan Basrak, John Cullum posted by 8 people Orengo Group Journal Picks sillitoe kshameer druvus Journal picks ppgardne zwang phoenixzxl
	Phylogenetic analysis of modularity in protein interaction networks. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (14 October 2009), 333. by Sinan Erten, Xin Li, Gurkan Bebek, Jing Li, Mehmet Koyutürk posted by 10 people Orengo Group Journal Picks sillitoe biomcgary Journal picks ppgardne grahamc zwang druvus barriot phoenixzxl
	Structural relationships among proteins with different global topologies and their implications for function annotation strategies [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 41. (13 October 2009), pp. 17377-17382. by Donald Petrey, Markus Fischer, Barry Honig posted by 7 people apaydin Orengo Group Journal Picks philcarter carlosjavierna TRHvidsten zwang phoenixzxl
	Prediction of antigenic epitopes on protein surfaces by consensus scoring [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 302. by Shide Liang, Dandan Zheng, Chi Zhang, Martin Zacharias posted by 3 people zwang phoenixzxl niallhaslam
	Understanding hydrogen-bond patterns in proteins using network motifs [My Copy] Bioinformatics, Vol. 25, No. 22. (15 November 2009), pp. 2921-2928. by Ofer Rahat, Uri Alon, Yaakov Levy, Gideon Schreiber posted by 5 people tomhebbron VGreiff zwang scmelton phoenixzxl
	Three-Dimensional Structural View of the Central Metabolic Network of Thermotoga maritima [My Copy] Science, Vol. 325, No. 5947. (18 September 2009), pp. 1544-1549. by Ying Zhang, Ines Thiele, Dana Weekes, et al.Zhanwen Li, Lukasz Jaroszewski, Krzysztof Ginalski, Ashley M. Deacon, John Wooley, Scott A. Lesley, Ian A. Wilson, Bernhard Palsson, Andrei Osterman, Adam Godzik posted by 14 people michaelbarton venancio schwartzjmc apocapoc eehsanipour riffraff reyez TRHvidsten flbarroso daveGerrard zwang pablocarb phoenixzxl roys
	Structural domain-domain interactions: Assessment and comparison with protein-protein interaction data to improve the interactome. [My Copy] Proteins, Vol. 9999, No. 9999. (5 August 2009), NA. by C. Prieto, J. De Las Rivas posted by 3 people higueruelo phoenixzxl zwang
	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 by 8 people dfdong anuragsethi sobolevnrm phoenixzxl maren Bioinformatics barry zwang
	Comparative analysis and unification of domain-domain interaction networks [My Copy] Bioinformatics, Vol. 25, No. 22. (15 November 2009), pp. 3020-3025. by Patrik Bjorkholm, Erik L. L. Sonnhammer posted by 5 people molnet-mna Orengo Group Journal Picks ilhem zwang phoenixzxl
	Pushing Structural Information into the Yeast Interactome by High-Throughput Protein Docking Experiments [My Copy] PLoS Comput Biol, Vol. 5, No. 8. (28 August 2009), e1000490. by Roberto Mosca, Carles Pons, Juan Fernández-Recio, Patrick Aloy posted by 6 people klexa Orengo Group Journal Picks bdessailly zwang phoenixzxl TRHvidsten
	Using a mutual information-based site transition network to map the genetic evolution of influenza A/H3N2 virus. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 18. (15 September 2009), pp. 2309-2317. by Zhen Xia, Gulei Jin, Jun Zhu, Ruhong Zhou posted by 4 people marywaye zwang phoenixzxl druvus
	Two Steps Forward for Synthetic Biology [My Copy] Science, Vol. 325, No. 5943. (21 August 2009), pp. 928-929. by Elizabeth Pennisi posted by 5 people abhishek_tiwari zwang phoenixzxl renatomilani rdiaz
	A Search for Energy Minimized Sequences of Proteins [My Copy] PLoS ONE, Vol. 4, No. 8. (19 August 2009), e6684. by Anupam N. Jha, G. K. Ananthasuresh, Saraswathi Vishveshwara posted by 2 people zwang phoenixzxl
	Sequence physical properties encode the global organization of protein structure space [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 34. (25 August 2009), pp. 14345-14348. by S. Rackovsky posted by 4 people zwang phoenixzxl roys kevinchannon
	Knowledge-guided inference of domain-domain interactions from incomplete protein-protein interaction networks [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2492-2499. by Mei Liu, Xue-wen Chen, Raja Jothi posted by 4 people zwang grahamc robfsouza phoenixzxl
	Geometric De-noising of Protein-Protein Interaction Networks [My Copy] PLoS Comput Biol, Vol. 5, No. 8. (7 August 2009), e1000454. by Oleksii Kuchaiev, Marija Rašajski, Desmond J. Higham, Nataša Pržulj posted by 10 people Orengo Group Journal Picks CorinYeats klexa tmmurali roys grahamc zwang robfsouza phoenixzxl kiekyon
	Multi-level learning: improving the prediction of protein, domain and residue interactions by allowing information flow between levels [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 241. by Kevin Yip, Philip Kim, Drew McDermott, Mark Gerstein posted by 10 people flbarroso zwang Simulation of operations and interactions jago gwallau installe barriot kshameer peteruetz phoenixzxl
	The Validation and Assessment of Machine Learning: A Game of Prediction from High-Dimensional Data [My Copy] PLoS ONE, Vol. 4, No. 8. (4 August 2009), e6287. by Tune H. Pers, Anders Albrechtsen, Claus Holst, Thorkild I. A. Sørensen, Thomas A. Gerds posted by 7 people zwang daforerog rdiaz phoenixzxl installe operon frohike
	Programming cells by multiplex genome engineering and accelerated evolution [My Copy] Nature, Vol. 460, No. 7257. (26 July 2009), pp. 894-898. by Harris H. Wang, Farren J. Isaacs, Peter A. Carr, et al.Zachary Z. Sun, George Xu, Craig R. Forest, George M. Church posted by 16 people abhishek_tiwari TorstenWaldminghaus jdoconnell dswan Annab badi druvus dayjm pkonings Journal picks zwang phoenixzxl biomcgary djkt Synthetic Biology dbikard
	A new method for revealing correlated mutations under the structural and functional constraints in proteins [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2506-2513. by Byung-Chul Lee, Dongsup Kim posted by 6 people RebeccaHamer qluo jlike operon zwang phoenixzxl
	Supervised prediction of drug-target interactions using bipartite local models [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2397-2403. by Kevin Bleakley, Yoshihiro Yamanishi posted by 5 people mingzhi ptrobajo apocapoc zwang phoenixzxl
	Dating the emergence of pandemic influenza viruses [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 28. (14 July 2009), pp. 11709-11712. by Gavin J. D. Smith, Justin Bahl, Dhanasekaran Vijaykrishna, et al.Jinxia Zhang, Leo L. M. Poon, Honglin Chen, Robert G. Webster, J. S. Malik Peiris, Yi Guan posted by 6 people memerman Oxford Virology wsjames zwang phoenixzxl awils1
	Design of therapeutic proteins with enhanced stability. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 106, No. 29. (21 July 2009), pp. 11937-11942. by Naresh Chennamsetty, Vladimir Voynov, Veysel Kayser, Bernhard Helk, Bernhardt L. Trout posted by 6 people guhjy biomcgary marti phoenixzxl edws zwang
	Exploring the Free Energy Landscape: From Dynamics to Networks and Back [My Copy] PLoS Comput Biol, Vol. 5, No. 6. (26 June 2009), e1000415. by Diego Prada-Gracia, Jesús Gómez-Gardeñes, Pablo Echenique, Fernando Falo posted by 7 people Fernando_FF sobolevnrm kiekyon phoenixzxl edws zwang Diego_Prada
	Rapid and Accurate Large-Scale Coestimation of Sequence Alignments and Phylogenetic Trees [My Copy] Science, Vol. 324, No. 5934. (19 June 2009), pp. 1561-1564. by Kevin Liu, Sindhu Raghavan, Serita Nelesen, C. Randal Linder, Tandy Warnow posted by 31 people gjuggler parnell kinestetika Orengo Group Journal Picks robertrentzsch xianjun gdb jbhiatt Mycology stajich operon biomcgary kieran101 zwang michaelbarton vingron tatman303 hryk lizbiogen pkonings Journal picks ppgardne dokky aprasad timflutre inquil TRHvidsten iSEEM djkt fenghezi phoenixzxl
	Prediction of protein-protein interactions: a study of the co-evolution model. [My Copy] Methods in molecular biology (Clifton, N.J.), Vol. 541 (2009), pp. 61-88. by Itai Sharon, Jason V. Davis, Golan Yona posted by 4 people chica kgutwin zwang phoenixzxl
	The second wave of synthetic biology: from modules to systems [My Copy] Nat Rev Mol Cell Biol, Vol. 10, No. 6. (01 June 2009), pp. 410-422. by Priscilla E. M. Purnick, Ron Weiss posted by 9 people pablocarb austin abhishek_tiwari zwang Vincent_Rouilly druvus boko4ikameto aalibes phoenixzxl
	Protein function annotation from sequence: prediction of residues interacting with RNA [My Copy] Bioinformatics (23 April 2009), btp257. by R. V. Spriggs, Y. Murakami, H. Nakamura, S. Jones posted by 3 people operon zwang phoenixzxl
	Domain Interaction Footprint: a multi-classification approach to predict domain-peptide interactions [My Copy] Bioinformatics, Vol. 25, No. 13. (1 July 2009), pp. 1632-1639. by Christian Schillinger, Prisca Boisguerin, Gerd Krause posted by 5 people Orengo Group Journal Picks ollieredfernwork kshameer zwang phoenixzxl
	Protein Dynamism and Evolvability [My Copy] Science, Vol. 324, No. 5924. (10 April 2009), pp. 203-207. by Nobuhiko Tokuriki, Dan S. Tawfik posted by 23 people tomhebbron anuragsethi ahmetbakan kevinchannon klexa lauresultan dbikard ibuch ramiro2k structural_bioinformatics McCammon barry pablocarb ramanuja baker-group sobolevnrm biomcgary hsekiguc VGreiff phoenixzxl zwang jdoconnell paulschlesinger
	A Yeast Synthetic Network for In Vivo Assessment of Reverse-Engineering and Modeling Approaches [My Copy] Cell, Vol. 137, No. 1. (03 April 2009), pp. 172-181. by Irene Cantone, Lucia Marucci, Francesco Iorio, et al.Maria A. Ricci, Vincenzo Belcastro, Mukesh Bansal, Stefania Santini, Mario di Bernardo, Diego di Bernardo, Maria P. Cosma posted by 10 people frohike Borelli cube_and_beyond absterga coela stasaki behindtherabbit zwang jjray phoenixzxl
	A Top-Down Approach to Infer and Compare Domain-Domain Interactions across Eight Model Organisms [My Copy] PLoS ONE, Vol. 4, No. 3. (31 March 2009), e5096. by Chittibabu Guda, Brian R. King, Lipika R. Pal, Purnima Guda posted by 2 people zwang phoenixzxl
	Protein structure prediction: when is it useful? [My Copy] Current Opinion in Structural Biology (25 March 2009) by Yang Zhang posted by 4 people Jporci zwang paulschlesinger phoenixzxl
	Toward accurate reconstruction of functional protein networks. [My Copy] Molecular systems biology, Vol. 5 (17 March 2009) by Nir Yosef, Lior Ungar, Einat Zalckvar, et al.Adi Kimchi, Martin Kupiec, Eytan Ruppin, Roded Sharan posted by 7 people jfr poirel zwang roys renatomilani phoenixzxl biomcgary
	Intrinsic Disorder in Protein Interactions: Insights From a Comprehensive Structural Analysis [My Copy] PLoS Comput Biol, Vol. 5, No. 3. (13 March 2009), e1000316. by Jessica H. Fong, Benjamin A. Shoemaker, Sergiy O. Garbuzynskiy, Michail Y. Lobanov, Oxana V. Galzitskaya, Anna R. Panchenko posted by 8 people kiekyon agustinarce pablocarb chica phoenixzxl zwang bobychan bpcusack
	A feature-based approach to modeling protein-protein interaction hot spots [My Copy] Nucl. Acids Res., Vol. 37, No. 8. (1 May 2009), pp. 2672-2687. by Kyu-Il Cho, Dongsup Kim, Doheon Lee posted by 6 people pablocarb higueruelo flbarroso phoenixzxl zwang neils
	Predicting RNA-binding sites of proteins using support vector machines and evolutionary information [My Copy] BMC Bioinformatics, Vol. 9, No. Suppl 12. (2008), S6. by Cheng W. Cheng, Emily Su, Jenn K. Hwang, Ting Y. Sung, Wen L. Hsu posted by 4 people balewis iaolier zwang phoenixzxl
	Sequence context-specific profiles for homology searching [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 10. (10 March 2009), pp. 3770-3775. by A. Biegert, J. Söding posted by 8 people yylin ikirmitz TRHvidsten operon dakelley martainn phoenixzxl zwang
	Uncovering the rules for proteinâprotein interactions from yeast genomic data [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 10. (10 March 2009), pp. 3752-3757. by Jin Wang, Chunhe Li, Erkang Wang, Xidi Wang posted by 10 people carlk guhjy AbnerCYH baker-group sobolevnrm mariap3636 mstumpf grahamc zwang phoenixzxl
	The evolutionary mechanics of domain organization in proteomes and the rise of modularity in the protein world. [My Copy] Structure (London, England : 1993), Vol. 17, No. 1. (14 January 2009), pp. 66-78. by M. Wang, G. Caetano-Anollés posted by 2 people zwang phoenixzxl
	Is Genetic Evolution Predictable? [My Copy] Science, Vol. 323, No. 5915. (6 February 2009), pp. 746-751. by David L. Stern, Virginie Orgogozo posted by 14 people emptyhb Scis0000002 anphony provero kshundyak balabu pkonings R.E.A.D Zephyrus jjray kaniko RamuAnandakrishnan zwang phoenixzxl
	Universal features in the genome-level evolution of protein domains. [My Copy] Genome biology, Vol. 10, No. 1. (30 January 2009), R12. by Marco Cosentino Lagomarsino, Alessandro L. Sellerio, Philip D. Heijning, Bruno Bassetti posted by 8 people docv zwang phoenixzxl djkt idoerg VGreiff grahamc pawelszczesny
	Joint Evolutionary Trees: A Large-Scale Method To Predict Protein Interfaces Based on Sequence Sampling [My Copy] PLoS Comput Biol, Vol. 5, No. 1. (23 January 2009), e1000267. by Stefan Engelen, Ladislas A. Trojan, Sophie Sacquin-Mora, Richard Lavery, Alessandra Carbone posted by 4 people zwang phoenixzxl kshameer druvus
	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 by 4 people chica zwang phoenixzxl chad_davis
	ElliPro: a new structure-based tool for the prediction of antibody epitopes. [My Copy] BMC bioinformatics, Vol. 9 (02 December 2008), 514. by Julia Ponomarenko, Huynh-Hoa H. Bui, Wei Li, et al.Nicholas Fusseder, Philip E. Bourne, Alessandro Sette, Bjoern Peters posted by 4 people niallhaslam zwang higueruelo phoenixzxl
	Characterization of domain-peptide interaction interface: a generic structure-based model to decipher the binding specificity of SH3 domains [My Copy] Mol Cell Proteomics (20 November 2008), M800450-MCP200. by Tingjun Hou, Zheng Xu, Wei Zhang, et al.William A. Mclaughlin, David A. Case, Yang Xu, Wei Wang posted by 3 people kgutwin phoenixzxl zwang
	Predicting PDZ domain–peptide interactions from primary sequences [My Copy] Nature Biotechnology, Vol. 26, No. 9. (17 August 2008), pp. 1041-1045. by Jiunn R. Chen, Bryan H. Chang, John E. Allen, Michael A. Stiffler, Gavin Macbeath posted by 6 people Evangelia yzlab phoenixzxl guhjy cabbagesofdoom zwang
	Accurate prediction of stability changes in protein mutants by combining machine learning with structure based computational mutagenesis [My Copy] Bioinformatics, Vol. 24, No. 18. (15 September 2008), pp. 2002-2009. by Majid Masso, Iosif I. Vaisman posted by 5 people medic0747 phoenixzxl zwang kluck afon
	The intrinsic conformational propensities of the 20 naturally occurring amino acids and reflection of these propensities in proteins [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 34. (2008), pp. 12259-12264. by David A. Beck, Darwin O. Alonso, Daigo Inoyama, Valerie Daggett posted by 3 people paulschlesinger phoenixzxl zwang
	High-Quality Binary Protein Interaction Map of the Yeast Interactome Network [My Copy] Science, Vol. 322, No. 5898. (3 October 2008), pp. 104-110. by Haiyuan Yu, Pascal Braun, Muhammed A. Yildirim, et al.Irma Lemmens, Kavitha Venkatesan, Julie Sahalie, Tomoko Hirozane-Kishikawa, Fana Gebreab, Na Li, Nicolas Simonis, Tong Hao, Jean-Francois Rual, Amelie Dricot, Alexei Vazquez, Ryan R. Murray, Christophe Simon, Leah Tardivo, Stanley Tam, Nenad Svrzikapa, Changyu Fan, Anne-Sophie de Smet, Adriana Motyl, Michael E. Hudson, Juyong Park, Xiaofeng Xin, Michael E. Cusick, Troy Moore, Charlie Boone, Michael Snyder, Frederick P. Roth, Albert-Laszlo Barabasi, Jan Tavernier, David E. Hill, Marc Vidal posted by 28 people mgomes nzm pauldobson cabbagezs mariap3636 semin roys phoenixzxl kintoki jbhiatt elenaz jfr ocs cerca ptrobajo carlk zwang BenosLab gracio reyez mdperry dullhunk Petersarkies grahamc yeastyboy guhjy maralena neils
	A Protein Domain-Based Interactome Network for C. elegans Early Embryogenesis [My Copy] Cell, Vol. 134, No. 3. (8 August 2008), pp. 534-545. by Mike Boxem, Zoltan Maliga, Niels Klitgord, et al.Na Li, Irma Lemmens, Miyeko Mana, Lorenzo de Lichtervelde, Joram D. Mul, Diederik van de Peut, Maxime Devos, Nicolas Simonis, Muhammed A. Yildirim, Murat Cokol, Huey-Ling Kao, Anne-Sophie de Smet, Haidong Wang, Anne-Lore Schlaitz, Tong Hao, Stuart Milstein, Changyu Fan, Mike Tipsword, Kevin Drew, Matilde Galli, Kahn Rhrissorrakrai, David Drechsel, Daphne Koller, Frederick P. Roth, Lilia M. Iakoucheva, Keith A. Dunker, Richard Bonneau, Kristin C. Gunsalus, David E. Hill, Fabio Piano, Jan Tavernier, Sander van den Heuvel, Anthony A. Hyman, Marc Vidal posted by 4 people cerca grahamc phoenixzxl zwang
	Functional coherence in domain interaction networks [My Copy] Bioinformatics, Vol. 24, No. 16. (15 August 2008), pp. i28-34. by Jayesh Pandey, Mehmet Koyuturk, Shankar Subramaniam, Ananth Grama posted by 4 people mgomes davidecellai phoenixzxl zwang
	An integrative approach for predicting interactions of protein regions [My Copy] Bioinformatics, Vol. 24, No. 16. (15 August 2008), pp. i35-41. by Sven-Eric Schelhorn, Thomas Lengauer, Mario Albrecht posted by 5 people phoenixzxl Jporci neils zwang kluck
	What is the expectation maximization algorithm? [My Copy] Nature biotechnology, Vol. 26, No. 8. (August 2008), pp. 897-899. by Chuong B. Do, Serafim Batzoglou posted by 15 people daforerog tonamswish Yanno robert85 claudiamichelle Roswell Cancer Crosstalk Zephyrus ptrobajo druvus jfr Tominator GeeSharpMinor guhjy zwang phoenixzxl
	Predicting and Validating Protein Interactions Using Network Structure [My Copy] PLoS Comput Biol, Vol. 4, No. 7. (25 July 2008), e1000118. by Pao-Yang Chen, Charlotte M. Deane, Gesine Reinert posted by 6 people TRHvidsten icq242500260 phoenixzxl roys zwang mingzhi
	Message-passing algorithms for the prediction of protein domain interactions from protein-protein interaction data [My Copy] Bioinformatics, Vol. 24, No. 18. (15 September 2008), pp. 2064-2070. by Mudassar Iqbal, Alex A. Freitas, Colin G. Johnson, Massimo Vergassola posted by 7 people carlk grahamc afon zwang reyez iris_2001 phoenixzxl
	A Dominant Conformational Role for Amino Acid Diversity in Minimalist Protein-Protein Interfaces [My Copy] Journal of Molecular Biology, Vol. 381, No. 2. (29 August 2008), pp. 407-418. by Ryan N. Gilbreth, Kaori Esaki, Akiko Koide, Sachdev S. Sidhu, Shohei Koide posted by 3 people mapplab phoenixzxl zwang
	Predicting protein function from domain content [My Copy] Bioinformatics (30 June 2008), btn312. by Kristoffer Forslund, Erik L. Sonnhammer posted by 6 people phoenixzxl laurenbragg saket druvus zwang reyez
	Phylogeny-Aware Gap Placement Prevents Errors in Sequence Alignment and Evolutionary Analysis [My Copy] Science, Vol. 320, No. 5883. (20 June 2008), pp. 1632-1635. by Ari Loytynoja, Nick Goldman posted by 33 people memerman operon TRHvidsten BioNica cmzmasek timflutre pradiptaray alexeid marti bpcusack hpaces dinnes gjuggler djkt ArtemPankin Khavkin's lab phoenixzxl jago marck imtechnology aprasad zwang bmaust bpb michaelbarton Schmidtc AbnerCYH gulsacan emptyhb iSEEM jlgreen Green Lab nuin
	Assembly reflects evolution of protein complexes. [My Copy] Nature, Vol. 453, No. 7199. (26 June 2008), pp. 1262-1265. by E. D. Levy, E. Boeri Erba, C. V. Robinson, S. A. Teichmann posted by 13 people robfsouza chica KeatingJClub noraziz chad_davis psique marck paulschlesinger neils jwm zwang faion phoenixzxl
	Progress and challenges in protein structure prediction [My Copy] Current Opinion in Structural Biology In Nucleic acids / Sequences and topology, Vol. 18, No. 3. (June 2008), pp. 342-348. by Y. Zhang posted by 12 people saunders ameetsoni rodrigofaccioli jperkins newton1234 hadesnumb kgutwin chad_davis barry phoenixzxl marck zwang
	Structural specificity in coiled-coil interactions [My Copy] Current Opinion in Structural Biology, Vol. In Press, Corrected Proof by Gevorg Grigoryan, Amy E. Keating posted by 9 people martainn kgutwin LOX-1 Receptor oteri markchen phoenixzxl marck zwang viktor21614
	Implications from a Network-Based Topological Analysis of Ubiquitin Unfolding Simulations [My Copy] PLoS ONE, Vol. 3, No. 5. (14 May 2008), e2149. by Arun Krishnan, Alessandro Giuliani, Joseph P. Zbilut, Masaru Tomita posted by 2 people zwang phoenixzxl
	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 by 9 people dfdong qluo robfsouza RebeccaHamer orr cabbagesofdoom phoenixzxl bicko zwang
	A Maximum Likelihood Method for Detecting Directional Evolution in Protein Sequences and its Application to Influenza A Virus. [My Copy] Molecular biology and evolution (29 May 2008) by Sergei L L. Kosakovsky Pond, Art F Y F. Poon, Andrew J J. Leigh Brown, Simon D W D. Frost posted by 5 people pradiptaray stajich Mycology zwang phoenixzxl
	Protein Design by Directed Evolution [My Copy] Annual Review of Biophysics, Vol. 37, No. 1. (2008), pp. 153-173. by Christian Jackel, Peter Kast, Donald Hilvert posted by 3 people flbarroso zwang phoenixzxl
	Design of protein function leaps by directed domain interface evolution [My Copy] Proceedings of the National Academy of Sciences (29 April 2008), 0801097105. by Jin Huang, Akiko Koide, Koki Makabe, Shohei Koide posted by 6 people GeeSharpMinor cmzmasek choonpeng zwang marck phoenixzxl
	A map of human protein interactions derived from co-expression of human mRNAs and their orthologs [My Copy] Mol Syst Biol, Vol. 4 (15 April 2008) by Arun K. Ramani, Zhihua Li, G. Traver Hart, Mark W. Carlson, Daniel R. Boutz, Edward M. Marcotte posted by 14 people KeatingJClub kgutwin windman83 druvus jeremymiller tmmurali biomcgary phoenixzxl zwang giovanni grahamc ardalby OPIG ptrobajo
	Using support vector machine combined with auto covariance to predict protein-protein interactions from protein sequences [My Copy] Nucl. Acids Res. (4 April 2008), gkn159. by Yanzhi Guo, Lezheng Yu, Zhining Wen, Menglong Li posted by 5 people guhjy zwang marck phoenixzxl tmmurali
	Protein networks in disease. [My Copy] Genome research, Vol. 18, No. 4. (1 April 2008), pp. 644-652. by Trey Ideker, Roded Sharan posted by 28 people shikin carlk isimpson chica saket zufar kaarsinogen giovenko guhjy balicea tmmurali Borelli jwdietrich frohike bootsy nedwards roys mclarenv phoenixzxl brianb schuylrp jfr paolomarcatili gracio thomaskelder ptrobajo raiyar zwang
	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 by 8 people mgomes pablocarb zwang bootsy biomcgary maralena phoenixzxl chad_davis
	Approaches to comparative sequence analysis: towards a functional view of vertebrate genomes. [My Copy] Nature reviews. Genetics, Vol. 9, No. 4. (April 2008), pp. 303-313. by Elliott H. Margulies, Ewan Birney posted by 9 people gjuggler akundaje timflutre guhjy zwang mingzhi phoenixzxl ptrobajo natstreet
	Analyzing Protein Interaction Networks Using Structural Information [My Copy] Annual Review of Biochemistry, Vol. 77, No. 1. (2008) by Christina Kiel, Pedro Beltrao, Luis Serrano posted by 13 people msuarezdiez flbarroso kshameer structural_bioinformatics chad_davis Borelli bicko neils Evangelia grahamc paolomarcatili phoenixzxl zwang
	Molecular dynamics simulations of nucleic acid-protein complexes. [My Copy] Current opinion in structural biology, Vol. 18, No. 2. (April 2008), pp. 194-199. by A. D. Mackerell, L. Nilsson posted by 6 people flbarroso ruvido zwang sobolevnrm baker-group phoenixzxl
	Co-evolution and co-adaptation in protein networks. [My Copy] FEBS letters, Vol. 582, No. 8. (9 April 2008), pp. 1225-1230. by D. Juan, F. Pazos, A. Valencia posted by 5 people biomcgary zwang phoenixzxl smgomez GomezLab
	Accurate prediction of protein\|[ndash]\|protein interactions from sequence alignments using a Bayesian method [My Copy] Molecular Systems Biology, Vol. 4 (12 February 2008) by Lukas Burger, Erik van Nimwegen posted by 15 people iaolier robfsouza raik sjcockell kengg grahamc laughcry zwang biomcgary cabbagezs roys cdeane gjuggler phoenixzxl pansapiens
	The evolutionary dynamics of the Saccharomyces cerevisiae protein interaction network after duplication [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 3. (22 January 2008), pp. 950-954. by Aviva Presser, Michael B. Elowitz, Manolis Kellis, Roy Kishony posted by 11 people carlk ellarond saket leemond31 robfsouza loukialili pradiptaray cjeans zwang roys phoenixzxl
	The biological impact of mass-spectrometry-based proteomics [My Copy] Nature, Vol. 450, No. 7172. (13 December 2007), pp. 991-1000. by Benjamin F. Cravatt, Gabriel M. Simon, John R. Yates Iii posted by 7 people nzm guhjy becarmson zwang Jporci phoenixzxl Yanno
	Co-evolving residues in membrane proteins [My Copy] Bioinformatics, Vol. 23, No. 24. (15 December 2007), pp. 3312-3319. by Angelika Fuchs, Antonio J. Martin-Galiano, Matan Kalman, Sarel Fleishman, Nir Ben-Tal, Dmitrij Frishman posted by 10 people qluo operon breden cjeans zwang SFUAntibodyResearch signal-duplication blasco_morozzo phoenixzxl Lombardo_7
	Determining the architectures of macromolecular assemblies [My Copy] Nature, Vol. 450, No. 7170. (29 November 2007), pp. 683-694. by Frank Alber, Svetlana Dokudovskaya, Liesbeth M. Veenhoff, et al.Wenzhu Zhang, Julia Kipper, Damien Devos, Adisetyantari Suprapto, Orit Karni-Schmidt, Rosemary Williams, Brian T. Chait, Michael P. Rout, Andrej Sali posted by 10 people mijam bicko chad_davis neils cjeans zwang CameronNeylon faion phoenixzxl higueruelo
	The molecular architecture of the nuclear pore complex [My Copy] Nature, Vol. 450, No. 7170. (29 November 2007), pp. 695-701. by Frank Alber, Svetlana Dokudovskaya, Liesbeth M. Veenhoff, et al.Wenzhu Zhang, Julia Kipper, Damien Devos, Adisetyantari Suprapto, Orit Karni-Schmidt, Rosemary Williams, Brian T. Chait, Andrej Sali, Michael P. Rout posted by 10 people kgutwin MatthiasReimann hadesnumb chad_davis neils cjeans zwang mkikkawa faion phoenixzxl
	Networks of genomic co-occurrence capture characteristics of human influenza A (H3N2) evolution [My Copy] Genome Res. (21 November 2007), gr.6969007. by Xiangjun Du, Zhuo Wang, Aiping Wu, et al.Lin Song, Yang Cao, Haiying Hang, Taijiao Jiang posted by 3 people tmmurali zwang phoenixzxl
	A mathematical tool for exploring the dynamics of biological networks [My Copy] Proceedings of the National Academy of Sciences (21 November 2007), 0709955104. by Paolo E. Barbano, Marina Spivak, Marc Flajolet, Angus C. Nairn, Paul Greengard, Leslie Greengard posted by 13 people Scis0000002 agomez tmmurali cjeans zwang cactus sobolevnrm forgoston lenov baker-group sdbneuro mdramirez phoenixzxl
	Molecular basis for evolving modularity in the yeast protein interaction network. [My Copy] PLoS computational biology, Vol. 3, No. 11. (1 November 2007), e226. by Ariel Fernández posted by 7 people saket pradiptaray tomhebbron zwang niallhaslam Ema phoenixzxl
	The Origins of Specificity in Polyketide Synthase Protein Interactions [My Copy] PLoS Computational Biology, Vol. 3, No. 9. (1 September 2007), e186. by Mukund Thattai, Yoram Burak, Boris I. Shraiman posted by 3 people zwang phoenixzxl marck
	Analysis on multi-domain cooperation for predicting protein-protein interactions [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (2007) by Rui S. Wang, Yong Wang, Ling Y. Wu, Xiang S. Zhang, Luonan Chen posted by 3 people guhjy zwang phoenixzxl
	A study of communication pathways in methionyl- tRNA synthetase by molecular dynamics simulations and structure network analysis [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 40. (2 October 2007), pp. 15711-15716. by Amit Ghosh, Saraswathi Vishveshwara posted by 5 people zwang cactus sobolevnrm baker-group phoenixzxl
	On State-Space Reduction in Multi-Strain Pathogen Models, with an Application to Antigenic Drift in Influenza A [My Copy] PLoS Computational Biology, Vol. 3, No. 8. (1 August 2007), e159. by Sergey Kryazhimskiy, Ulf Dieckmann, Simon A. Levin, Jonathan Dushoff posted by 4 people phoenixzxl e3bo bpb zwang
	Propagation of large concentration changes in reversible protein-binding networks [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 34. (21 August 2007), pp. 13655-13660. by Sergei Maslov, I. Ispolatov posted by 3 people phoenixzxl zwang dylanwalker
	Introduction to Computational Proteomics [My Copy] PLoS Comput Biol, Vol. 3, No. 7. (27 July 2007), e114. by Jacques Colinge, Keiryn L. Bennett posted by 14 people Jporci phoenixzxl alexgeorgiou Borelli daforerog druvus giovenko guhjy chad_davis anwazo zwang cabbagezs groepl Bioinformatics
	PDZ Domain Binding Selectivity Is Optimized Across the Mouse Proteome [My Copy] Science, Vol. 317, No. 5836. (20 July 2007), pp. 364-369. by Michael A. Stiffler, Jiunn R. Chen, Viara P. Grantcharova, et al.Ying Lei, Daniel Fuchs, John E. Allen, Lioudmila A. Zaslavskaia, Gavin Macbeath posted by 3 people zwang carlk phoenixzxl
	Interaction-site prediction for protein complexes: a critical assessment [My Copy] Bioinformatics, Vol. 23, No. 17. (1 September 2007), pp. 2203-2209. by Huan-Xiang Zhou, Sanbo Qin posted by 15 people dfdong jinghu_fandm flbarroso timg phoenixzxl tjimenez bicko malcook zwang cabbagezs niallhaslam carlescorbi marti higueruelo kintoki
	Deciphering Protein–Protein Interactions. Part II. Computational Methods to Predict Protein and Domain Interaction Partners [My Copy] PLoS Comput Biol, Vol. 3, No. 4. (27 April 2007), e43. by Benjamin A. Shoemaker, Anna R. Panchenko posted by 25 people colmryan timg cerca jperkins chica kiekyon kshameer zdai Robinder giovenko Yanno guhjy aalibes bicko jfr chad_davis cjeans iris_2001 zwang lpfernandes groepl carlk Evangelia higueruelo phoenixzxl
	Revealing static and dynamic modular architecture of the eukaryotic protein interaction network [My Copy] Mol Syst Biol, Vol. 3 (24 April 2007) by Kakajan Komurov, Michael White posted by 9 people Borelli tomhebbron massivemayhem nicoleq zwang mingzhi phoenixzxl ellakat carlk
	A consensus view of protein dynamics [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 3. (16 January 2007), pp. 796-801. by Manuel Rueda, Carles Ferrer-Costa, Tim Meyer, et al.Alberto Pérez, Jordi Camps, Adam Hospital, Josep L. Gelpí, Modesto Orozco posted by 16 people Diego_Prada bmduggan lna dimka aqeel aswin rabio grahamc hmk zwang biehl Ema phoenixzxl ras The BMM Dome LamBras