phoenixzxl's library 408 articles Export

	Accurate molecular classification of cancer using simple rules [My Copy] BMC Medical Genomics, Vol. 2, No. 1. (2009), 64. by Xiaosheng Wang, Osamu Gotoh posted to machine_learning disease_drug by phoenixzxl on 2009-11-04 01:33:11 as along with 1 person ptrobajo
	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 to svm structure_aided prediction_interface by phoenixzxl on 2009-11-04 01:31:12 as along with 4 people kshameer zwang 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 to network_ppi network_analysis disease_drug by phoenixzxl on 2009-11-02 07:02:06 as along with 9 people and 1 group kiekyon nickolay kshameer zwang venancio CorinYeats ess30 poirel jbesnard Orengo Group Journal Picks
	Genome-wide association studies: progress and potential for drug discovery and development [My Copy] Nature Reviews Drug Discovery, Vol. 7, No. 3. (01 February 2008), pp. 221-230. by Stephen F. Kingsmore, Ingrid E. Lindquist, Joann Mudge, Damian D. Gessler, William D. Beavis posted to review genome disease_drug by phoenixzxl on 2009-10-28 01:19:48 as along with 6 people and 1 group ubcg08l ajaymalik guhjy massivemayhem psique Petersarkies parkinson's disease references
	phyloXML: XML for evolutionary biology and comparative genomics [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 356. by Mira Han, Christian Zmasek posted to intereting evolution by phoenixzxl on 2009-10-28 01:07:31 as along with 6 people and 1 group operon cisevol kshameer Geknitics druvus cmzmasek BergmanLab
	Costly punishment does not always increase cooperation [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 41. (13 October 2009), pp. 17448-17451. by Jia-Jia Wu, Bo-Yu Zhang, Zhen-Xing Zhou, et al.Qiao-Qiao He, Xiu-Deng Zheng, Ross Cressman, Yi Tao posted to intereting by phoenixzxl on 2009-10-22 07:18:44 as
	How to identify essential genes from molecular networks? [My Copy] BMC Systems Biology, Vol. 3, No. 1. (2009), 102. by Gabriel D. Rio, Dirk Koschutzki, Gerardo Coello posted to network_inference by phoenixzxl on 2009-10-16 04:16:19 as along with 7 people operon tmmurali kshameer ptrobajo renatomilani druvus daforerog
	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 to stochastic statistical evolution domain by phoenixzxl on 2009-10-16 04:10:50 as along with 5 people and 2 groups sillitoe kshameer druvus ppgardne zwang Orengo Group Journal Picks Journal picks
	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 to network_evolution network_analysis by phoenixzxl on 2009-10-15 02:47:32 as along with 7 people and 2 groups sillitoe biomcgary ppgardne grahamc zwang druvus barriot Orengo Group Journal Picks Journal picks
	Harnessing gene expression to identify the genetic basis of drug resistance [My Copy] Molecular Systems Biology, Vol. 5 (13 October 2009) by Bo-Juen Chen, Helen C. Causton, Denesy Mancenido, Noel L. Goddard, Ethan O. Perlstein, Dana Pe'er posted to gene_expression disease_drug data_integration by phoenixzxl on 2009-10-15 02:46:02 as along with 4 people dswan ashishanand ptrobajo frohike
	Viral adaptation to host: a proteome-based analysis of codon usage and amino acid preferences [My Copy] Molecular Systems Biology, Vol. 5 (13 October 2009) by Iris Bahir, Menachem Fromer, Yosef Prat, Michal Linial posted to infect by phoenixzxl on 2009-10-15 02:44:54 as along with 1 person michaelbarton
	A coiled-coil motif that sequesters ions to the hydrophobic core [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 40. (6 October 2009), pp. 16950-16955. by Marcus D. Hartmann, Oswin Ridderbusch, Kornelius Zeth, et al.Reinhard Albrecht, Oli Testa, Derek N. Woolfson, Guido Sauer, Stanislaw Dunin-Horkawicz, Andrei N. Lupas, Birte H. Alvarez posted to coiled_coil by phoenixzxl on 2009-10-09 05:12:13 as along with 2 people paulschlesinger kevinchannon
	The interwinding nature of protein-protein interfaces and its implication for protein complex formation. [My Copy] Bioinformatics (Oxford, England) (29 September 2009), btp563. by Kei Yura, Steven Hayward posted to prediction_interface complex by phoenixzxl on 2009-09-30 02:18:32 as along with 3 people dfdong higueruelo tprpip
	Global alignment of multiple protein interaction networks with application to functional orthology detection [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 35. (2 September 2008), pp. 12763-12768. by Rohit Singh, Jinbo Xu, Bonnie Berger posted to network_ppi network_analysis by phoenixzxl on 2009-09-29 08:32:23 as along with 7 people nliu82 ptrobajo icq242500260 dakelley renatomilani bpcusack roys
	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 to structure_aided go by phoenixzxl on 2009-09-29 02:17:16 as along with 4 people and 1 group philcarter carlosjavierna TRHvidsten zwang Orengo Group Journal Picks
	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 co-evolution by phoenixzxl on 2009-09-28 09:17:30 as along with 6 people and 1 group dfdong anuragsethi sobolevnrm maren barry zwang Bioinformatics
	Simultaneous inference of biological networks of multiple species from genome-wide data and evolutionary information: a semi-supervised approach [My Copy] Bioinformatics, Vol. 25, No. 22. (15 November 2009), pp. 2962-2968. by Hisashi Kashima, Yoshihiro Yamanishi, Tsuyoshi Kato, Masashi Sugiyama, Koji Tsuda posted to network_inference data_integration by phoenixzxl on 2009-09-25 15:59:34 as along with 2 people roys druvus
	How to infer gene networks from expression profiles [My Copy] Molecular Systems Biology, Vol. 3 (13 February 2007) by Mukesh Bansal, Vincenzo Belcastro, Alberto Ambesi-Impiombato, Diego di Bernardo posted to review network_inference bayesian by phoenixzxl on 2009-09-25 08:29:29 as along with 34 people and 3 groups nicholasflann icq242500260 guhjy Zephyrus antonkratz bertelsen isimpson daforerog poirel agonzale roys Neeperando APRegier rdiaz klo Borelli ggallone ptrobajo druvus cswinburne jfr eckart_bindewald wnpx nickluscombe kengg mikaelhuss jrbanga BIBLIOma RockHI lp2 natstreet heliopais mariakmejia tmmurali Jarman Lab EBI-regulation Plantandetc
	Modeling system states in liver cells: Survival, apoptosis and their modifications in response to viral infection [My Copy] BMC Systems Biology, Vol. 3, No. 1. (2009), 97. by Nicole Philippi, Dorothee Walter, Rebekka Schlatter, et al.Karine Ferreira, Michael Ederer, Oliver Sawodny, Jens Timmer, Christoph Borner, Thomas Dandekar posted to system_biology simulation infect by phoenixzxl on 2009-09-23 02:20:38 as
	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 to prediction_interface by phoenixzxl on 2009-09-23 02:16:54 as along with 2 people zwang niallhaslam
	Global networks of functional coupling in eukaryotes from comprehensive data integration [My Copy] Genome Research, Vol. 19, No. 6. (25 June 2009), pp. 1107-1116. by Andrey Alexeyenko, Erik L. L. Sonnhammer posted to data_integration bayesian by phoenixzxl on 2009-09-21 07:44:11 as along with 7 people and 1 group ptrobajo kshameer rdiaz guhjy provero roys grahamc ParkinsonLab_at_MaRS
	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 to structure network_motif insight by phoenixzxl on 2009-09-21 02:58:11 as along with 4 people tomhebbron VGreiff zwang scmelton
	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 to peruse insight cns by phoenixzxl on 2009-09-18 03:46:00 as along with 12 people venancio schwartzjmc apocapoc eehsanipour riffraff reyez TRHvidsten flbarroso daveGerrard zwang pablocarb roys
	Statistical tests for differential expression in cDNA microarray experiments [My Copy] Genome Biology, Vol. 4, No. 4. (2003), 210. by Xiangqin Cui, Gary Churchill posted to statistical review by phoenixzxl on 2009-09-18 02:34:40 as along with 6 people stsaft pengchy egreenfest heliopais waszak shikin
	Bioinformatics construction of the human cell surfaceome. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 106, No. 39. (29 September 2009), pp. 16752-16757. by J. P. da Cunha, P. A. Galante, J. E. de Souza, et al.R. F. de Souza, P. M. Carvalho, D. T. Ohara, R. P. Moura, S. M. Oba-Shinja, S. K. Marie, W. A. Silva, R. O. Perez, B. Stransky, M. Pieprzyk, J. Moore, O. Caballero, J. Gama-Rodrigues, A. Habr-Gama, W. P. Kuo, A. J. Simpson, A. A. Camargo, Lloyd J. Old, S. J. de Souza posted to insight data_integration by phoenixzxl on 2009-09-16 02:56:39 as along with 3 people frohike tonamswish renatomilani
	A Bayesian framework for combining heterogeneous data sources for gene function prediction (in Saccharomyces cerevisiae) [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 100, No. 14. (8 July 2003), pp. 8348-8353. by Olga G. Troyanskaya, Kara Dolinski, Art B. Owen, Russ B. Altman, David Botstein posted to prediction_function data_integration bayesian by phoenixzxl on 2009-09-15 04:17:37 as along with 21 people and 2 groups ruichu bertelsen bresiva BioGeek serak dragonrez okarsligil lfriedl balajis eckart_bindewald eweaver luispedro opheliav wnpx nedwards Evangelia kallberg isimpson carlk srp33 frohike kdl Bioinformatics
	Inferring Cellular Networks Using Probabilistic Graphical Models [My Copy] Science, Vol. 303, No. 5659. (6 February 2004), pp. 799-805. by Nir Friedman posted to review network_inference cns bayesian by phoenixzxl on 2009-09-15 04:16:00 as along with 24 people and 2 groups antonkratz jxl abhishek_tiwari richardbickerton ruichu ggallone bertelsen ldfu ujh lfriedl opheliav ryang wnpx nirfriedman neveaire koller helsley dimatura edwardmorrissey vietanh0 Yumyai srp33 saman_vp jo_davies Jarman Lab kdl
	Causal Protein-Signaling Networks Derived from Multiparameter Single-Cell Data [My Copy] Science, Vol. 308, No. 5721. (22 April 2005), pp. 523-529. by Karen Sachs, Omar Perez, Dana Pe'er, Douglas A. Lauffenburger, Garry P. Nolan posted to network_inference bayesian by phoenixzxl on 2009-09-15 04:05:22 as along with 23 people and 1 group pkm sameersoi abhishek_tiwari poirel roys frohike aviad_work czeller emptyhb kentsis kaarsinogen balajis rand_bayes ryang wnpx os252 j3xucite noano koller jhatrimatri cdppublications lp2 saman_vp CDP
	Seasonal transmission potential and activity peaks of the new influenza A(H1N1): a Monte Carlo likelihood analysis based on human mobility [My Copy] BMC Medicine, Vol. 7, No. 1. (14 Sep 2009), 45. by Duygu Balcan, Hao Hu, Bruno Goncalves, et al.Paolo Bajardi, Chiara Poletto, Jose J. Ramasco, Daniela Paolotti, Nicola Perra, Michele Tizzoni, Wouter Van den Broeck, Vittoria Colizza, Alessandro Vespignani posted to statistical influenza by phoenixzxl on 2009-09-14 08:43:44 as along with 2 people marinari simdoc
	CCHMM_PROF: a HMM-based Coiled-Coil Predictor with Evolutionary Information [My Copy] Bioinformatics (10 September 2009), btp539. by Lisa Bartoli, Piero Fariselli, Anders Krogh, Rita Casadio posted to probability coiled_coil by phoenixzxl on 2009-09-11 01:59:27 as
	RRW: repeated random walks on genome-scale protein networks for local cluster discovery [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (9 September 2009), 283. by Kathy Macropol, Tolga Can, Ambuj Singh posted to network_ppi network_analysis by phoenixzxl on 2009-09-10 01:49:30 as along with 3 people and 1 group sillitoe barriot poirel Orengo Group Journal Picks
	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 to prediction_ppi prediction_ddi by phoenixzxl on 2009-09-07 07:24:23 as along with 2 people higueruelo zwang
	Regression Applied to Protein Binding Site Prediction and Comparison with Classification [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (03 September 2009), 276. by Joachim Giard, Jerome Ambroise, Jean L. Gala, Benoit Macq posted to prediction_interface machine_learning by phoenixzxl on 2009-09-07 03:11:26 as along with 1 person jinghu_fandm
	Chemical approaches to synthetic biology [My Copy] Current Opinion in Biotechnology (03 September 2009) by Cristiano Chiarabelli, Pasquale Stano, Pier L. Luisi posted to synthetic_biology review by phoenixzxl on 2009-09-07 02:27:30 as along with 1 person abhishek_tiwari
	The evolution of information suppression in communicating robots with conflicting interests [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 37. (15 September 2009), pp. 15786-15790. by Sara Mitri, Dario Floreano, Laurent Keller posted to intereting co-evolution by phoenixzxl on 2009-09-04 07:30:26 as along with 2 people vgauthier rdiaz
	Analyzing biological network parameters with CentiScaPe [My Copy] Bioinformatics, Vol. 25, No. 21. (1 November 2009), pp. 2857-2859. by Giovanni Scardoni, Michele Petterlini, Carlo Laudanna posted to soft network_analysis by phoenixzxl on 2009-09-04 01:57:42 as along with 5 people ess30 colmryan operon kshameer dolchan
	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 to simulation evolution domain by phoenixzxl on 2009-09-03 07:21:37 as along with 7 people docv zwang djkt idoerg VGreiff grahamc pawelszczesny
	Context-Specific Target Definition in Influenza A Virus Hemagglutinin-Glycan Receptor Interactions [My Copy] Vol. 16, No. 8. (28 August 2009), pp. 803-814. by Zachary Shriver, Rahul Raman, Karthik Viswanathan, Ram Sasisekharan posted to review ha glycan by phoenixzxl on 2009-09-02 08:51:45 as
	BigFoot: Bayesian alignment and phylogenetic footprinting with MCMC [My Copy] BMC Evolutionary Biology, Vol. 9, No. 1. (28 August 2009), 217. by Rahul Satija, Adam Novak, Istvan Miklos, Rune Lyngso, Jotun Hein posted to sequence_alignment mcmc bayesian by phoenixzxl on 2009-09-02 02:23:45 as along with 3 people and 2 groups cmzmasek cisevol djkt cis-regulatory-evolution BergmanLab
	Correlating gene and protein expression data using Correlated Factor Analysis [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (01 September 2009), 272. by Chuen S. Tan, Agus Salim, Alexander Ploner, Janne Lehtio, Kee S. Chia, Yudi Pawitan posted to simulation gene_expression by phoenixzxl on 2009-09-02 01:56:41 as along with 4 people mayercd rdiaz ptrobajo coffeerv
	Comparative analysis and unification of domain-domain interaction networks [My Copy] Bioinformatics (31 August 2009), btp522. by Patrik Bjorkholm, Erik L. L. Sonnhammer posted to prediction_ddi network_analysis by phoenixzxl on 2009-09-01 02:09:26 as along with 1 person zwang
	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 to structure prediction_interface by phoenixzxl on 2009-08-31 07:52:26 as along with 4 people and 1 group klexa bdessailly zwang TRHvidsten Orengo Group Journal Picks
	A Quick Guide to Teaching R Programming to Computational Biology Students [My Copy] PLoS Comput Biol, Vol. 5, No. 8. (28 August 2009), e1000482. by Stephen J. Eglen posted to tutorial r by phoenixzxl on 2009-08-31 07:23:03 as along with 61 people and 4 groups kaliczp maren sobolevnrm ltitodem zchen75 artaban421 natstreet jasonn tomhebbron psique Stew eshirdel guhjy polivares ajw fishtank diamantis fastjoe23 kshameer daveGerrard hrogers JoeBanks cisevol srijit hwright Ayest VGreiff welliegirl asadrahman rdiaz ptrobajo heliopais coffeerv Vincent_Rouilly marekrud tnhh barry ansobol Zephyrus walshtp bertelsen fgibson pkonings Borelli klauso dlizcano dswan skembel djkt jclau lwaldron timhubbard AJCann thegoose dullhunk brianb neils silberbauer daforerog ppgardne druvus Bioinformatics - CRUK BergmanLab eLearning in Leicester Journal picks
	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 network_evolution co-evolution by phoenixzxl on 2009-08-28 08:06:33 as along with 7 people dfdong Garamonfok venancio jperkins TRHvidsten djkt tmmurali
	Feature selection and transduction for prediction of molecular bioactivity for drug design [My Copy] Bioinformatics, Vol. 19, No. 6. (12 April 2003), pp. 764-771. by Jason Weston, Fernando Perez-Cruz, Olivier Bousquet, Olivier Chapelle, Andre Elisseeff, Bernhard Scholkopf posted to machine_learning disease_drug by phoenixzxl on 2009-08-27 08:09:09 as along with 2 people bioinfo kallberg
	Bioinformatics models for predicting antigenic variants of influenza A/H3N2 virus [My Copy] Bioinformatics, Vol. 24, No. 4. (15 February 2008), pp. 505-512. by Yu-Chieh Liao, Min-Shi Lee, Chin-Yu Ko, Chao A. Hsiung posted to machine_learning influenza evolution by phoenixzxl on 2009-08-27 07:48:04 as along with 1 person friendpine
	A quantitative genotype algorithm reflecting H5N1 Avian influenza niches [My Copy] Bioinformatics, Vol. 23, No. 18. (15 September 2007), pp. 2368-2375. by Xiu-Feng Wan, Guorong Chen, Feng Luo, Michael Emch, Ruben Donis posted to influenza evolution by phoenixzxl on 2009-08-27 07:43:08 as along with 1 person cjeans
	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 to network_analysis influenza evolution by phoenixzxl on 2009-08-27 02:35:28 as along with 3 people marywaye zwang druvus
	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 to structure by phoenixzxl on 2009-08-26 07:19:15 as along with 3 people zwang roys kevinchannon
	Computational prediction of host-pathogen protein protein interactions [My Copy] Bioinformatics, Vol. 23, No. 13. (1 July 2007), pp. i159-166. by Matthew D. Dyer, T. M. Murali, Bruno W. Sobral posted to prediction_ppi by phoenixzxl on 2009-08-25 09:25:05 as along with 6 people and 1 group kshameer behindtherabbit operon GustavoLacerda carlk cerca Bioinformatics

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evolution	43
review	33
network_ppi	32
data_integration	26
insight	26
bayesian	24
network_analysis	24
prediction_interface	24
simulation	24
machine_learning	22
prediction_ddi	22
prediction_ppi	21
specificity	21
disease_drug	19
influenza	18
network_evolution	18
network_dynamic	17
structure_aided	17
complex	16
intereting	16
tutorial	15
co-evolution	14
domain	14
infect	14
dynamics	13
synthetic_biology	13
prediction_function	12
structure	12
coiled_coil	11
glycan	11
peruse	11
statistical	11
svm	11
soft	10
cns	9
data	9
gene_expression	9
science	9
sequence_alignment	9
probability	8
r	8
go	7
protein_design	7
system_biology	7
essay	6
ha	6
network_motif	6
neurocomputing	6
stochastic	6
network_inference	5
assembly	4
vesicle_transport	4
complex_system	3
cooperativity	3
optimization	3
prediction_interaction_more	3
prediction_structure	3
tool	3
book	2
genome	1
mcmc	1

phoenixzxl's library 408 articles Export

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