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tmmuralis library [350 articles]

Nye artikler sendt til tmmuralis bibliotek.
  • The Bacteria Fight Back
    Science, Vol. 321, No. 5887. (18 July 2008), pp. 356-361.
    by Gary Taubes
    posted to drug-resistance by tmmurali on 2008-07-18 23:23:17 as read along with 1 person deeps66
  • The environmental contribution to gene expression profiles
    Nature Reviews Genetics, Vol. 9, No. 8., pp. 575-581.
    by Greg Gibson
    posted to gene_expression_mining actex by tmmurali on 2008-07-18 15:28:03 as ***
  • Unraveling Protein Networks with Power Graph Analysis
    PLoS Comput Biol, Vol. 4, No. 7. (11 July 2008), e1000108.
    by Loïc Royer, Matthias Reimann, Bill Andreopoulos, Michael Schroeder
    posted to network_structure network_modules network-models by tmmurali on 2008-07-17 19:26:39 as ***** along with 13 people and 1 group MatthiasReimann jmuhlich AbnerCYH royerloic stajich chad_davis renatomilani askrajiv Borelli nuin reyez kengg Ema Berkeley Mycology
  • Coordinated evolution of the hepatitis C virus.
    Proceedings of the National Academy of Sciences of the United States of America (9 July 2008)
    by D S S Campo, Z Dimitrova, R J J Mitchell, J Lara, Y Khudyakov
    posted to host-pathogen by tmmurali on 2008-07-15 22:05:53 as **
  • Association analysis-based transformations for protein interaction networks: a function prediction case study
    (2007), pp. 540-549.
    by Gaurav Pandey, Michael Steinbach, Rohit Gupta, Tushar Garg, Vipin Kumar
    posted to ppi-prediction ppi_network_quality gene-function-prediction by tmmurali on 2008-07-15 20:14:01 as *****
  • Drug Target Identification Using Side-Effect Similarity
    Science, Vol. 321, No. 5886. (11 July 2008), pp. 263-266.
    by Monica Campillos, Michael Kuhn, Anne-Claude Gavin, Lars J Jensen, Peer Bork
    posted to drug-prioritisation by tmmurali on 2008-07-12 16:44:24 as ** along with 4 people jmuhlich ajaymalik reyez larsjuhljensen
  • Benchmarking ortholog identification methods using functional genomics data.
    Genome Biol, Vol. 7, No. 4. (13 April 2006)
    by Tim Hulsen, Martijn A Huynen, Jacob de Vlieg, Peter M Groenen
    posted to homologues by tmmurali on 2008-07-10 15:56:03 as ** along with 5 people and 1 group alpae operon indigoviolet bluto bootsy EisenLab
  • BioGRID: a general repository for interaction datasets.
    Nucleic Acids Res, Vol. 34, No. Database issue. (1 January 2006)
    by C Stark, BJ Breitkreutz, T Reguly, L Boucher, A Breitkreutz, M Tyers
    posted to dataset_interactions by tmmurali on 2008-07-08 07:16:04 as ** along with 9 people dragonrez chasmand carlk jyuh balajis koller nm lpfernandes Evangelia
  • Increasing the Power to Detect Causal Associations by Combining Genotypic and Expression Data in Segregating Populations
    PLoS Computational Biology, Vol. 3, No. 4. (1 April 2007), e69.
    by Jun Zhu, Matthew C Wiener, Chunsheng Zhang, Arthur Fridman, Eric Minch, Pek Y Lum, Jeffrey R Sachs, Eric E Schadt
    posted to reverse_engineering data_integration actex by tmmurali on 2008-07-07 21:18:33 as ** along with 4 people semrich jfr hms jo_davies
  • Virus Attenuation by Genome-Scale Changes in Codon Pair Bias
    Science, Vol. 320, No. 5884. (27 June 2008), pp. 1784-1787.
    by Robert J Coleman, Dimitris Papamichail, Steven Skiena, Bruce Futcher, Eckard Wimmer, Steffen Mueller
    posted to host-pathogen by tmmurali on 2008-06-27 15:50:42 as ** along with 3 people and 1 group wsjames austin skumagai Oxford Virology
  • Uncovering the overlapping community structure of complex networks in nature and society
    Nature, Vol. 435, No. 7043., pp. 814-818.
    by Gergely Palla, Imre Derényi, Illés Farkas, Tamás Vicsek
    posted to network_modules by tmmurali on 2008-06-18 15:32:07 as ***** along with 12 people and 2 groups betaparticle ellakat kuhn jfr lfriedl wilmegape gcalda ltabourier michaelmampaey Scis0000002 maralena lmichan kdl ADMiRes
  • Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks.
    Nature genetics (15 June 2008)
    by Jun Zhu, Bin Zhang, Erin N N Smith, Becky Drees, Rachel B B Brem, Leonid Kruglyak, Roger E E Bumgarner, Eric E E Schadt
    posted to transcriptional_regulatory_networks network-inference data_integration actex by tmmurali on 2008-06-18 14:56:33 as ***** along with 9 people caseybrown djkt marck roys jyuh realzhang kengg ptrobajo maralena
  • Sequence Similarity Network Reveals Common Ancestry of Multidomain Proteins
    PLoS Comput Biol, Vol. 4, No. 5. (16 May 2008), e1000063.
    by Nan Song, Jacob M Joseph, George B Davis, Dannie Durand
    posted to homologues by tmmurali on 2008-06-18 14:54:56 as ** along with 2 people zwang Ema
  • Use and misuse of the gene ontology annotations.
    Nature reviews. Genetics (13 May 2008)
    by Seung Yon Rhee, Valerie Wood, Kara Dolinski, Sorin Draghici
    posted to functional_enrichment by tmmurali on 2008-06-18 14:52:25 as ***** along with 18 people and 1 group marck capitall realzhang gjuggler A_Olympia fpattyn cmzmasek djkt renatomilani giovenko cabbagesofdoom ptrobajo RamuAnandakrishnan roys carlk mariakmejia aheilbut jyuh logics of knowledge
  • An in Vivo Map of the Yeast Protein Interactome
    Science (8 May 2008), 1153878.
    by Kirill Tarassov, Vincent Messier, Christian R Landry, Stevo Radinovic, Mercedes M Molina, Igor Shames, Yelena Malitskaya, Jackie Vogel, Howard Bussey, Stephen W Michnick
    posted to ppi_network dataset-ppi by tmmurali on 2008-06-13 22:10:04 as ** along with 7 people aubinhon grahamc jyuh brianb neils cabbagesofdoom phoenixzxl
  • Genomics: Protein fossils live on as RNA
    Nature, Vol. 453, No. 7196. (5 June 2008), pp. 729-731.
    by Rajkumar Sasidharan, Mark Gerstein
    posted to rnai by tmmurali on 2008-06-04 19:06:26 as **
  • Transcription factor and microRNA motif discovery: The Amadeus platform and a compendium of metazoan target sets.
    Genome research (14 April 2008)
    by Chaim Linhart, Yonit Halperin, Ron Shamir
    posted to transcriptional_regulatory_networks microrna_targets by tmmurali on 2008-06-04 17:08:44 as ** along with 6 people and 1 group isimpson fpattyn maximilianh ealloza idonaldson maralena BergmanLab
  • Gene-set approach for expression pattern analysis
    Brief Bioinform (17 January 2008), bbn001.
    by Dougu Nam, Seon-Young Kim
    posted to pathway_perturbation_gene_set_based by tmmurali on 2008-06-04 16:38:20 as ** along with 8 people beete yas AlexanderPico heliopais giovenko lp2 seemu thomaskelder
  • The new paradigm of flow cell sequencing
    Genome Res., Vol. 18, No. 6. (1 June 2008), pp. 839-846.
    by Robert A Holt, Steven J Jones
    posted to next-generation-sequencing by tmmurali on 2008-06-02 18:49:52 as ** along with 11 people and 1 group dchughes serdarbozdag hpaces balicea tharris reyez caseybrown GustavoLacerda kintoki lp2 stajich Berkeley Mycology
  • Optimization in computational systems biology
    BMC Systems Biology, Vol. 2, No. 1. (2008)
    by Julio Banga
    posted to systems_biology actex by tmmurali on 2008-05-29 04:21:35 as ** along with 5 people balicea phoenixzxl biehl reyez jrbanga
  • Nongenetic Individuality in the Host–Phage Interaction
    PLoS Biology, Vol. 6, No. 5. (1 May 2008), e120.
    by Sivan Pearl, Chana Gabay, Roy Kishony, Amos Oppenheim, Nathalie Q Balaban
    posted to actex_phage by tmmurali on 2008-05-28 22:12:28 as ** along with 1 person kengg
  • Predicting synthetic rescues in metabolic networks
    Mol Syst Biol, Vol. 4 (12 February 2008)
    by Adilson E Motter, Natali Gulbahce, Eivind Almaas, Albert-Laszlo Barabasi
    posted to actex by tmmurali on 2008-05-28 04:52:30 as ***** along with 9 people debasis kentsis zwang bootsy biomcgary cabbagezs westoll shikin shung
  • Selective targeting of ITK blocks multiple steps of HIV replication
    Proceedings of the National Academy of Sciences, Vol. 105, No. 18. (6 May 2008), pp. 6684-6689.
    by Julie A Readinger, Gillian M Schiralli, Jian-Kang Jiang, Craig J Thomas, Avery August, Andrew J Henderson, Pamela L Schwartzberg
    posted to host-pathogen by tmmurali on 2008-05-23 17:46:16 as **
  • Mechanism of shape determination in motile cells
    Nature, Vol. 453, No. 7194. (22 May 2008), pp. 475-480.
    by Kinneret Keren, Zachary Pincus, Greg M Allen, Erin L Barnhart, Gerard Marriott, Alex Mogilner, Julie A Theriot
    posted to cell-motion-model by tmmurali on 2008-05-21 22:04:22 as ** along with 1 person lechristophe
  • Using support vector machine combined with auto covariance to predict protein-protein interactions from protein sequences
    Nucl. Acids Res. (4 April 2008), gkn159.
    by Yanzhi Guo, Lezheng Yu, Zhining Wen, Menglong Li
    posted to ppi-prediction by tmmurali on 2008-05-20 15:02:09 as ** along with 4 people zwang marck phoenixzxl jyuh
  • Human metabolic phenotype diversity and its association with diet and blood pressure
    Nature (20 April 2008)
    by Elaine Holmes, Ruey L Loo, Jeremiah Stamler, Magda Bictash, Ivan KS Yap, Queenie Chan, Tim Ebbels, Maria De Iorio, Ian J Brown, Kirill A Veselkov, Martha L Daviglus, Hugo Kesteloot, Hirotsugu Ueshima, Liancheng Zhao, Jeremy K Nicholson, Paul Elliott
    posted to dataset-metabolomics by tmmurali on 2008-05-14 20:58:52 as **
  • A bottom-up approach to gene regulation
    Nature, Vol. 439, No. 7078. (16 February 2006), pp. 856-860.
    by Nicholas J Guido, Xiao Wang, David Adalsteinsson, David Mcmillen, Jeff Hasty, Charles R Cantor, Timothy C Elston, JJ Collins
    posted to actex by tmmurali on 2008-05-14 20:12:44 as ** along with 14 people and 2 groups rklancer snuppepuppan jyuh okarsligil bayesian balicea samal madhadron balabu johncumbers mmt proulx dbikard nklee Bioinformatics SynBioSys
  • Prediction of phenotype and gene expression for combinations of mutations
    Mol Syst Biol, Vol. 3 (27 March 2007)
    by Gregory W Carter, Susanne Prinz, Christine Neou, Patrick J Shelby, Bruz Marzolf, Vesteinn Thorsson, Timothy Galitski
    posted to genetic_interactions actex by tmmurali on 2008-05-14 19:58:34 as ** along with 5 people balabu nicoleq zwang gwcarter jo_davies
  • Teaching systems biology: an active-learning approach.
    Cell Biol Educ, Vol. 4, No. 4. (2005), pp. 323-329.
    by A Kumar
    posted to systems-biology-education by tmmurali on 2008-05-14 19:47:45 as ** along with 2 people and 1 group wnpx karthikram Neoscientists
  • A systems biology approach to learning autophagy.
    Autophagy, Vol. 2, No. 1. (r 2006), pp. 12-23.
    by DJ Klionsky, A Kumar
    posted to systems-biology-education by tmmurali on 2008-05-14 19:47:09 as **
  • Molecular systems biology at the crossroads: to know less about more, or to know more about less?
    Proteome Sci, Vol. 3 (28 October 2005)
    by M Latterich
    posted to systems_biology by tmmurali on 2008-05-14 15:53:12 as ** along with 1 person and 1 group karthikram Neoscientists
  • The evolution of modularity in bacterial metabolic networks
    Proceedings of the National Academy of Sciences (6 May 2008), 0712149105.
    by Anat Kreimer, Elhanan Borenstein, Uri Gophna, Eytan Ruppin
    posted to network_modules dataset_interactions by tmmurali on 2008-05-14 15:48:53 as ** along with 11 people carlk mjoach saket qwermish deanmalmgren skato_toyaku jjray hryk pinney roys phoenixzxl
  • Estimating the size of the human interactome
    Proceedings of the National Academy of Sciences (12 May 2008), 0708078105.
    by Michael P Stumpf, Thomas Thorne, Eric de Silva, Ronald Stewart, Hyeong J An, Michael Lappe, Carsten Wiuf
    posted to ppi_network by tmmurali on 2008-05-13 18:25:50 as ***** along with 18 people chad_davis Evangelia balicea marck paolomarcatili sanchezbuelna cabbagesofdoom xingxu mjoach jyuh chrissp100 zwang roys brianb friendpine Ema neils phoenixzxl
  • A modular approach for integrative analysis of large-scale gene-expression and drug-response data
    Nature Biotechnology, Vol. 26, No. 5. (08 May 2008), pp. 531-539.
    by Zoltán Kutalik, Jacques S Beckmann, Sven Bergmann
    posted to gene_expression_mining gene_expression_compendium biclustering by tmmurali on 2008-05-13 16:06:30 as ***** along with 3 people ptrobajo oelemento stringertheory
  • A relationship between gene expression and protein interactions on the proteome scale: analysis of the bacteriophage T7 and the yeast Saccharomyces cerevisiae.
    Nucleic Acids Res, Vol. 29, No. 17. (1 September 2001), pp. 3513-3519.
    by A Grigoriev
    posted to actex_phage by tmmurali on 2008-05-10 17:25:35 as ** along with 2 people gurkanbebek kintoki
  • Toward an AIDS Vaccine
    Science, Vol. 320, No. 5877. (9 May 2008), pp. 760-764.
    by Bruce D Walker, Dennis R Burton
    posted to host-pathogen by tmmurali on 2008-05-09 15:25:53 as ** along with 1 person becarmson
  • A Simple Model of the Modular Structure of Transcriptional Regulation in Yeast
    Journal of Computational Biology, Vol. 15, No. 4. (2008), pp. 393-405.
    by Vladimir Filkov, Nameeta Shah
    posted to transcriptional_regulatory_networks reverse_engineering actex by tmmurali on 2008-05-09 05:30:23 as ***** along with 1 person eskay
  • Stromal gene expression predicts clinical outcome in breast cancer
    Nat Med, Vol. 14, No. 5. (May 2008), pp. 518-527.
    by Greg Finak, Nicholas Bertos, Francois Pepin, Svetlana Sadekova, Margarita Souleimanova, Hong Zhao, Haiying Chen, Gulbeyaz Omeroglu, Sarkis Meterissian, Atilla Omeroglu, Michael Hallett, Morag Park
    posted to dataset-gene-expression-cancer cancer_classification by tmmurali on 2008-05-07 20:40:32 as **
  • Detecting cis-regulatory binding sites for cooperatively binding proteins
    Nucl. Acids Res., Vol. 36, No. 8. (1 May 2008), e46.
    by Liesbeth van Oeffelen, Pierre Cornelis, Wouter Van Delm, Fedor De Ridder, Bart De Moor, Yves Moreau
    posted to transcription-modules by tmmurali on 2008-05-06 14:27:20 as ** along with 3 people isimpson idonaldson maximilianh
  • Hierarchical structure and the prediction of missing links in networks
    Nature, Vol. 453, No. 7191., pp. 98-101.
    by Aaron Clauset, Cristopher Moore, MEJ Newman
    posted to network_structure actex by tmmurali on 2008-05-02 15:36:33 as ***** along with 35 people sen_cheng jjray rds Borelli ptrobajo apwesolowski dpf cmmorel fbaroni balicea cmor kengg pbull jago Ema gtgt15 hryk nedwards i-stevenson pinney elsantosneto markusd eyliu craigwilson06 jyuh margaritis gagliol bryanhughes akshat cactus AbnerCYH tny briordan deanmalmgren soramame_0518
  • Direct targets of the TRP63 transcription factor revealed by a combination of gene expression profiling and reverse engineering
    Genome Res. (25 April 2008), gr.073601.107.
    by Giusy Della Gatta, Mukesh Bansal, Alberto Ambesi-Impiombato, Dario Antonini, Caterina Missero, Diego di Bernardo
    posted to transcriptional_regulatory_networks reverse_engineering actex by tmmurali on 2008-04-29 22:17:55 as ***** along with 1 person roys
  • Stability puzzles in phage lambda.
    Physical review. E, Statistical, nonlinear, and soft matter physics, Vol. 65, No. 5 Pt 1. (May 2002)
    by E Aurell, S Brown, J Johanson, K Sneppen
    posted to actex_phage by tmmurali on 2008-04-28 03:19:54 as **
  • Real-time monitoring of single bacterium lysis and leakage events by chemiluminescence microscopy.
    Analytical chemistry, Vol. 79, No. 14. (15 July 2007), pp. 5373-5381.
    by Y Zhang, GJ Phillips, ES Yeung
    posted to actex_phage by tmmurali on 2008-04-28 03:18:34 as **
  • BicOverlapper: A tool for bicluster visualization
    Bioinformatics, Vol. 24, No. 9. (1 May 2008), pp. 1212-1213.
    by Rodrigo Santamaria, Roberto Theron, Luis Quintales
    posted to biclustering by tmmurali on 2008-04-25 13:51:52 as ** along with 1 person jyuh
  • Using a logical model to predict the growth of yeast
    BMC Bioinformatics, Vol. 9 (12 February 2008), 97.
    by KE Whelan, RD King
    posted to actex by tmmurali on 2008-04-23 06:54:19 as ** along with 1 person heliopais
  • A Systems Approach to Mapping DNA Damage Response Pathways
    Science, Vol. 312, No. 5776. (19 May 2006), pp. 1054-1059.
    by Christopher T Workman, Craig H Mak, Scott Mccuine, Jean-Bosco Tagne, Maya Agarwal, Owen Ozier, Thomas J Begley, Leona D Samson, Trey Ideker
    posted to transcriptional_regulatory_networks actex by tmmurali on 2008-04-23 06:29:29 as ** along with 5 people biozhang2001 jfr nirfriedman cconboy koller
  • Discrimination of Direct and Indirect Interactions in a Network of Regulatory Effects
    Journal of Computational Biology, Vol. 14, No. 9. (2007), pp. 1217-1228.
    by Achim Tresch, T Beissbarth, H Sultmann, R Kuner, A Poustka, A Buness
    posted to actex reverse_engineering by tmmurali on 2008-04-20 21:23:04 as **
  • The Chemical Genomic Portrait of Yeast: Uncovering a Phenotype for All Genes
    Science, Vol. 320, No. 5874. (18 April 2008), pp. 362-365.
    by Maureen E Hillenmeyer, Eula Fung, Jan Wildenhain, Sarah E Pierce, Shawn Hoon, William Lee, Michael Proctor, St, Mike Tyers, Daphne Koller, Russ B Altman, Ronald W Davis, Corey Nislow, Guri Giaever
    posted to dataset_chemical_genomics by tmmurali on 2008-04-18 18:59:35 as ** along with 6 people and 1 group chasmand roys lp2 bala stajich nfreed Berkeley Mycology
  • Bayesian network analysis of signaling networks: a primer.
    Sci STKE, Vol. 2005, No. 281. (26 April 2005)
    by D Pe'er
    posted to actex reverse_engineering by tmmurali on 2008-04-17 17:08:41 as ** along with 4 people Borelli ryang wnpx jhatrimatri
  • Positional gene enrichment analysis of gene sets for high-resolution identification of overrepresented chromosomal regions.
    Nucleic Acids Res (16 March 2008)
    by Katleen De Preter, Roland Barriot, Frank Speleman, Jo Vandesompele, Yves Moreau
    posted to functional_enrichment by tmmurali on 2008-04-17 15:22:32 as **** along with 3 people and 1 group jfr frohike bootsy Bioinformatics
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