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所有的文献@标签 actex [52 articles]

当前文献的标签分类为: actex.
  • Validation and refinement of gene-regulatory pathways on a network of physical interactions.
    Genome Biol, Vol. 6, No. 7. (2005)
    by CH Yeang, HC Mak, S McCuine, C Workman, T Jaakkola, T Ideker
    posted to actex by tmmurali on 2008-03-28 23:57:34 as ***** along with 11 people and 1 group jago carlk AlexanderPico snuppepuppan abhik textoris wnpx noano koller ccr cdppublications CDP
  • 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
  • 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
  • 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
  • Modular epistasis in yeast metabolism
    Nature Genetics, Vol. 37, No. 1. (12 December 2004), 77.
    by Daniel Segrè, Alexander Deluna, George M Church, Roy Kishony
    posted to actex genetic_interactions by tmmurali on 2007-12-09 08:11:44 as ** along with 6 people RMGraze balajis i41m nirfriedman koller edwardmorrissey
  • Deductive biocomputing
    PLoS ONE, Vol. 2 (2007)
    by J Shrager, R Waldinger, M Stickel, JP Massar
    posted to actex by tmmurali on 2008-02-22 17:57:54 as ***** along with 3 people aheilbut jyuh dullhunk
  • Artificial gene networks for objective comparison of analysis algorithms.
    Bioinformatics, Vol. 19 Suppl 2 (October 2003)
    by P Mendes, W Sha, K Ye
    posted to actex reverse_engineering by tmmurali on 2008-04-16 08:00:12 as ** along with 4 people and 2 groups camster dragonrez lfriedl pmendes dbk-lab kdl
  • Genetic interactions in yeast: is robustness going bust?
    Mol Syst Biol, Vol. 3 (27 March 2007)
    by Martin Kupiec, Roded Sharan, Eytan Ruppin
    posted to actex genetic_interactions by tmmurali on 2007-12-09 08:10:53 as *****
  • TABASCO: A single molecule, base-pair resolved gene expression simulator
    BMC Bioinformatics, Vol. 8 (19 December 2007), 480.
    by Sriram Kosuri, Jason R Kelly, Drew Endy
    posted to actex actex_phage by tmmurali on 2007-12-27 17:35:01 as *****
  • 2020 ComputingExceeding human limits
    Nature, Vol. 440, No. 7083. (22 March 2006), pp. 409-410.
    by Stephen H Muggleton
    posted to actex by tmmurali on 2007-12-17 21:37:22 as ***** along with 3 people ddahlem dullhunk bigbossman
  • Perturbations to uncover gene networks.
    Trends Genet (10 November 2006)
    by Jesper Tegnér, Johan Björkegren
    posted to actex by tmmurali on 2008-01-05 07:40:30 as ***** along with 4 people aswin braingrind tvdbulck heliopais
  • 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
  • Functional genomic hypothesis generation and experimentation by a robot scientist.
    Nature, Vol. 427, No. 6971. (15 January 2004), pp. 247-252.
    by RD King, KE Whelan, FM Jones, PG Reiser, CH Bryant, SH Muggleton, DB Kell, SG Oliver
    posted to actex by tmmurali on 2007-12-17 21:32:06 as ***** along with 7 people and 5 groups dbk yas jtbates tabu samal dullhunk JeremyZucker streptomyces dbk-lab T_lab triplehelix MetabolicModeling
  • Programming biomolecular self-assembly pathways
    Nature, Vol. 451, No. 7176. (17 January 2008), pp. 318-322.
    by Peng Yin, Harry M Choi, Colby R Calvert, Niles A Pierce
    posted to actex by tmmurali on 2008-01-17 18:58:42 as ** along with 3 people austin cjeans cactus
  • MetaReg: A platform for modeling, analysis and visualization of biological systems using large-scale experimental data
    Genome Biology, Vol. 9 (02 January 2008), R1.
    by Igor Ulitsky, Irit Gat-Viks, Ron Shamir
    posted to actex network-inference by tmmurali on 2008-01-30 15:41:00 as ***** along with 4 people jfr jyuh waszak ptrobajo
  • Dialogue on Reverse-Engineering Assessment and Methods: The DREAM of High-Throughput Pathway Inference
    Annals of the New York Academy of Sciences, Vol. 1115, No. 1. (December 2007), pp. 1-22.
    by Gustavo Stolovitzky, Don Monroe, Andrea Califano
    posted to actex reverse_engineering by tmmurali on 2007-12-24 17:27:05 as ***** along with 2 people jyuh roys
  • Evolvability and hierarchy in rewired bacterial gene networks
    Nature, Vol. 452, No. 7189. (17 April 2008), pp. 840-845.
    by Mark Isalan, Caroline Lemerle, Konstantinos Michalodimitrakis, Carsten Horn, Pedro Beltrao, Emanuele Raineri, Mireia Garriga-Canut, Luis Serrano
    posted to actex transcriptional_regulatory_networks by tmmurali on 2008-04-16 21:20:44 as ** along with 16 people and 4 groups chad_davis michaelbarton austin AbnerCYH hryk margaritis cactus dbikard Garamonfok caseybrown biehl aalibes dullhunk neils cmzmasek josedavid BergmanLab SynBioSys Centre de Recherches Interdisciplinaires GEB
  • 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
  • Studying complex biological systems using multifactorial perturbation.
    Nat Rev Genet, Vol. 4, No. 2. (February 2003), pp. 145-151.
    by RC Jansen
    posted to actex by tmmurali on 2008-01-05 07:36:32 as ** along with 4 people snuppepuppan jfr samal qfwills
  • A systems biology approach to prediction of oncogenes and molecular perturbation targets in B-cell lymphomas
    Mol Syst Biol, Vol. 4 (12 February 2008)
    by Kartik M Mani, Celine Lefebvre, Kai Wang, Wei K Lim, Katia Basso, Riccardo Dalla-Favera, Andrea Califano
    posted to actex active-networks reverse_engineering by tmmurali on 2008-04-12 17:24:07 as ***** along with 4 people dragonrez ealloza shikin dap5087
  • 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
  • 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
  • Computing Knock-Out Strategies in Metabolic Networks
    Journal of Computational Biology, Vol. 15, No. 3. (2008), pp. 259-268.
    by Utz-Uwe Haus, Steffen Klamt, Tamon Stephen
    posted to actex by tmmurali on 2008-03-28 19:17:09 as ***** along with 1 person ptrobajo
  • Systematic pathway analysis using high-resolution fitness profiling of combinatorial gene deletions
    Nature Genetics, Vol. 39, No. 2. (07 January 2007), pp. 199-206.
    by Robert P St Onge, Ramamurthy Mani, Julia Oh, Michael Proctor, Eula Fung, Ronald W Davis, Corey Nislow, Frederick P Roth, Guri Giaever
    posted to actex genetic_interactions by tmmurali on 2008-01-05 07:27:52 as * along with 4 people aalibes wnpx Ao_Li2007 gwcarter
  • Designing biological systems.
    Genes Dev, Vol. 21, No. 3. (1 February 2007), pp. 242-254.
    by DA Drubin, JC Way, PA Silver
    posted to actex synthetic-biology by tmmurali on 2007-12-18 17:49:25 as ** along with 5 people and 1 group dbikard choonpeng hslee snowcrash jonsta247 SynBioSys
  • 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
  • Evaluation of different biological data and computational classification methods for use in protein interaction prediction
    Proteins: Structure, Function, and Bioinformatics, Vol. 63, No. 3. (2006), pp. 490-500.
    by Yanjun Qi, Ziv Bar-Joseph, Judith Klein-Seetharaman
    posted to actex ppi-prediction by tmmurali on 2008-01-07 04:19:20 as read along with 2 people and 1 group lfriedl balajis kdl
  • 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
  • Minimal cut sets in biochemical reaction networks.
    Bioinformatics, Vol. 20, No. 2. (22 January 2004), pp. 226-234.
    by S Klamt, ED Gilles
    posted to actex by tmmurali on 2007-12-09 08:54:31 as ** along with 2 people alexg AbnerCYH
  • Estimating Maximum Likelihood Parameters for Stochastic Context-Free Graph Grammars
    Inductive Logic Programming (2003), pp. 281-298.
    by Tim Oates, Shailesh Doshi, Fang Huang
    posted to actex graph-grammars by tmmurali on 2008-01-06 18:54:50 as **
  • Biological network design strategies: discovery through dynamic optimization.
    Mol Biosyst, Vol. 2, No. 12. (December 2006), pp. 650-659.
    by BS Adiwijaya, PI Barton, B Tidor
    posted to actex by tmmurali on 2008-03-17 21:13:57 as ***** along with 2 people and 1 group jrbanga cdppublications CDP
  • Plasticity of the cis-Regulatory Input Function of a Gene.
    PLoS Biol, Vol. 4, No. 4. (April 2006)
    by AE Mayo, Y Setty, S Shavit, A Zaslaver, U Alon
    posted to actex transcriptional_regulatory_networks by tmmurali on 2008-04-16 04:47:43 as ** along with 4 people and 1 group rklancer stevanspringer bayesian discreteonyxorb FAB-lab
  • Stimulus Design for Model Selection and Validation in Cell Signaling.
    PLoS Comput Biol, Vol. 4, No. 2. (15 February 2008)
    by Joshua F F Apgar, Jared E E Toettcher, Drew Endy, Forest M M White, Bruce Tidor
    posted to actex by tmmurali on 2008-03-17 21:12:41 as *****
  • Metabolic network analysis of the causes and evolution of enzyme dispensability in yeast.
    Nature, Vol. 429, No. 6992. (10 June 2004), pp. 661-664.
    by B Papp, C Pál, LD Hurst
    posted to actex genetic_interactions by tmmurali on 2007-12-09 08:26:54 as ***** along with 5 people Takayuki hryk bjorns edwardmorrissey stefanoallesina
  • 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
  • Analyzing Pathways Using SAT-Based Approaches
    Algebraic Biology (2007), pp. 155-169.
    by Ashish Tiwari, Carolyn Talcott, Merrill Knapp, Patrick Lincoln, Keith Laderoute
    posted to actex network-dynamics by tmmurali on 2008-01-06 22:06:24 as **
  • Multiple knockout analysis of genetic robustness in the yeast metabolic network
    Nature Genetics, Vol. 38, No. 9. (29 August 2006), pp. 993-998.
    by David Deutscher, Isaac Meilijson, Martin Kupiec, Eytan Ruppin
    posted to actex genetic_interactions by tmmurali on 2007-12-09 08:21:48 as ** along with 6 people and 1 group hryk koller raiyar cjeans patrycja_missiuro edwardmorrissey steinmetzlab
  • Programming gene expression with combinatorial promoters
    Mol Syst Biol, Vol. 3 (13 November 2007)
    by Robert S Cox, Michael G Surette, Michael B Elowitz
    posted to actex transcription-modules by tmmurali on 2007-12-18 16:48:07 as ** along with 14 people and 2 groups tresch Retchless austin dpollard balicea kengg dbikard margaritis lusk cjeans zwang discreteonyxorb cabbagezs Ema EisenLab SynBioSys
  • 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
  • Inferring cellular networks - a review
    BMC Bioinformatics, Vol. 8, No. Suppl 6. (2007)
    by Florian Markowetz, Rainer Spang
    posted to actex network-inference by tmmurali on 2008-01-07 01:58:50 as ***** along with 6 people czeller bertelsen jyuh shigepong dejori heliopais
  • Learning Factor Graphs in Polynomial Time and Sample Complexity
    J. Mach. Learn. Res., Vol. 7 (2006), pp. 1743-1788.
    by Pieter Abbeel, Daphne Koller, Andrew Y Ng
    posted to actex network-inference by tmmurali on 2008-01-06 22:01:06 as **
  • 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 **
  • Combinatorics of feedback in cellular uptake and metabolism of small molecules
    Proceedings of the National Academy of Sciences (19 December 2007), 0706231105.
    by Sandeep Krishna, Szabolcs Semsey, Kim Sneppen
    posted to actex network_modules by tmmurali on 2007-12-26 19:32:52 as ***** along with 2 people coolger cjeans
  • Parameter Identifiability and Estimation of HIV/AIDS Dynamic Models.
    Bulletin of mathematical biology, Vol. 70, No. 3. (April 2008), pp. 785-799.
    by H Wu, H Zhu, H Miao, AS Perelson
    posted to actex host-pathogen by tmmurali on 2008-04-17 02:43:35 as **
  • A probabilistic methodology for integrating knowledge and experiments on biological networks.
    J Comput Biol, Vol. 13, No. 2. (March 2006), pp. 165-181.
    by I Gat-Viks, A Tanay, D Raijman, R Shamir
    posted to actex by tmmurali on 2008-01-07 00:12:41 as ***** along with 1 person carlk
  • 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
  • Modeling and simulation of genetic regulatory systems: a literature review.
    J Comput Biol, Vol. 9, No. 1. (2002), pp. 67-103.
    by H de Jong
    posted to actex by tmmurali on 2008-04-17 02:42:05 as ** along with 14 people and 3 groups phoenixzxl eldan bayesian balicea Happybene wnpx kengg noano sstoma josepe dagmar jo_davies roys maburkitt VirtualPlants Plantandetc compneur
  • A Predictive Model for Transcriptional Control of Physiology in a Free Living Cell
    Cell, Vol. 131, No. 7. (28 December 2007), pp. 1354-1365.
    by Richard Bonneau, Marc T Facciotti, David J Reiss, Amy K Schmid, Min Pan, Amardeep Kaur, Vesteinn Thorsson, Paul Shannon, Michael H Johnson, Christopher J Bare, William Longabaugh, Madhavi Vuthoori, Kenia Whitehead, Aviv Madar, Lena Suzuki, Tetsuya Mori, Dong-Eun Chang, Jocelyne Diruggiero, Carl H Johnson, Leroy Hood, Nitin S Baliga
    posted to actex network_modules by tmmurali on 2007-12-29 15:26:16 as ***** along with 4 people jyuh raiyar oelemento emptyhb
  • Systematic identification of mammalian regulatory motifs' target genes and functions
    Nature Methods, Vol. 5, No. 4. (02 March 2008), pp. 347-353.
    by Jason B Warner, Anthony A Philippakis, Savina A Jaeger, Fangxue S He, Jolinta Lin, Martha L Bulyk
    posted to actex transcriptional_regulatory_networks transcription-modules by tmmurali on 2008-03-31 17:02:05 as ***** along with 4 people isimpson jyuh zwang ptrobajo
  • An ontology for a Robot Scientist.
    Bioinformatics, Vol. 22, No. 14. (15 July 2006)
    by LN Soldatova, A Clare, A Sparkes, RD King
    posted to actex by tmmurali on 2008-04-16 04:13:40 as **
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