Tag genetic_regulatory_networks [53 articles] Export

Recent papers classified by the tag genetic_regulatory_networks.

	Models of transcription factor binding: Sensitivity of activation functions to model assumptions [My Copy] Journal of Theoretical Biology, Vol. 257, No. 3. (07 April 2009), pp. 419-429. by Dominique Chu, Nicolae R. Zabet, Boris Mitavskiy posted to tfbinding journal grnmodel genetic_regulatory_networks by joseph_x_zhou on 2009-11-10 13:16:57 as
	Comparing different ODE modelling approaches for gene regulatory networks [My Copy] Journal of Theoretical Biology, Vol. 261, No. 4. (21 December 2009), pp. 511-530. by A. Polynikis, S. J. Hogan, M. di Bernardo posted to review journal grnmodel grn genetic_regulatory_networks gene_regulatory_networks by joseph_x_zhou on 2009-11-09 14:32:54 as along with 1 person agonzale
	Genexp--a genetic network simulation environment [My Copy] Bioinformatics, Vol. 18, No. 10. (1 October 2002), pp. 1400-1401. by Tra T. Vu, Jiri Vohradsky posted to simulation network_simulation genetic_regulatory_networks by meanerelk on 2009-09-29 19:13:44 as along with 1 person kentz
	Design of genetic networks with specified functions by evolution in silico [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 101, No. 2. (13 January 2004), pp. 580-585. by Paul FranÃ§ois, Vincent Hakim posted to silico genetic_regulatory_networks by meanerelk on 2009-09-25 20:56:41 as along with 8 people Borelli rouault rklancer eldan monod dbikard discreteonyxorb mjoach
	An efficient method for identifying statistical interactors in gene association networks [My Copy] Biostat, Vol. 10, No. 4. (1 October 2009), pp. 706-718. by Alina Andrei, Christina Kendziorski posted to statistics genetic_regulatory_networks gene_coexpression correlation by lwaldron on 2009-09-14 22:47:47 as along with 2 people zufar rdiaz
	Pathway analysis reveals functional convergence of gene expression profiles in breast cancer. [My Copy] BMC medical genomics, Vol. 1 (2008) by R. Shen, A. M. Chinnaiyan, D. Ghosh posted to biomarkers breast_cancer cancer genetic_regulatory_networks by lwaldron on 2009-06-24 21:54:16 as along with 4 people and 3 groups zufar songpku Zephyrus jfr Roswell Cancer Crosstalk BCDC Lab Notebook Breast Cancer Reading Club
	Molecular portraits of human breast tumours. [My Copy] Nature, Vol. 406, No. 6797. (17 August 2000), pp. 747-752. by C. M. Perou, T. Sørlie, M. B. Eisen, et al.M. van de Rijn, S. S. Jeffrey, C. A. Rees, J. R. Pollack, D. T. Ross, H. Johnsen, L. A. Akslen, O. Fluge, A. Pergamenschikov, C. Williams, S. X. Zhu, P. E. Lønning, A. L. Børresen-Dale, P. O. Brown, D. Botstein posted to breast_cancer cancer gene_coexpression genetic_regulatory_networks by lwaldron on 2009-06-11 21:47:30 as along with 6 people Zephyrus misonneh ruszczyk jfr frohike evaf
	In silico analysis of promoter regions from cold-induced genes in rice (Oryza sativa L.) and Arabidopsis thaliana reveals the importance of combinatorial control [My Copy] Bioinformatics (25 March 2009), btp172. by Angelica Lindlof, Marcus Brautigam, Aakash Chawade, Olof Olsson, Bjorn Olsson posted to arabidopsis eucariotic_transcription_regulation genetic_regulatory_networks networks by lptolik on 2009-05-15 09:44:57 as along with 1 person druvus
	Comparative analysis of module-based versus direct methods for reverse-engineering transcriptional regulatory networks [My Copy] BMC Systems Biology, Vol. 3, No. 1. (2009), 49. by Tom Michoel, Riet De Smet, Anagha Joshi, Yves Van de Peer, Kathleen Marchal posted to data_analysis genetic_regulatory_networks networks by lptolik on 2009-05-15 09:40:58 as along with 2 people ptrobajo TRHvidsten
	A module map showing conditional activity of expression modules in cancer. [My Copy] Nature genetics, Vol. 36, No. 10. (October 2004), pp. 1090-1098. by Eran Segal, Nir Friedman, Daphne Koller, Aviv Regev posted to genetic_regulatory_networks by lwaldron on 2009-05-13 21:15:52 as along with 7 people and 1 group ipark-kaist bertelsen saman_vp jimineep ladygoat balajis nirfriedman CGREL
	Microarray-based gene set analysis: a comparison of current methods [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008), 502. by Sarah Song, Michael Black posted to genetic_regulatory_networks microarray review by lwaldron on 2009-04-20 20:00:44 as along with 26 people and 1 group bertelsen giovenko dipenps holecm jfr ptrobajo ekotelnikova zufar buyske guhjy heliopais fhalbrit lptolik balicea daforerog Zephyrus irinamohorianu dswan shikin nuin hersh006 behindtherabbit colinDotAIBN druvus barriot GeeSharpMinor Roswell Cancer Crosstalk
	WGCNA: an R package for weighted correlation network analysis. [My Copy] BMC bioinformatics, Vol. 9, No. 1. (2008) by Peter Langfelder, Steve Horvath posted to dataanalysis genetic_regulatory_networks gpl microarray r bioconductor by lwaldron on 2009-04-19 00:41:39 as along with 15 people and 2 groups jeremymiller daforerog sficklin jfr ekotelnikova slv23 rdiaz guhjy natstreet druvus cswinburne lptolik jmeppley irinamohorianu pengchy Bioinformatics Bioinformatics - CRUK
	Predicting the binding preference of transcription factors to individual DNA k-mers [My Copy] Bioinformatics, Vol. 25, No. 8. (15 April 2009), pp. 1012-1018. by Trevis M. Alleyne, Lourdes Pena-Castillo, Gwenael Badis, et al.Shaheynoor Talukder, Michael F. Berger, Andrew R. Gehrke, Anthony A. Philippakis, Martha L. Bulyk, Quaid D. Morris, Timothy R. Hughes posted to eucariotic_transcription_regulation genetic_regulatory_networks modelling by lptolik on 2009-04-08 12:19:19 as along with 6 people and 1 group absterga TRHvidsten bais djkt nuin maximilianh BenosLab
	Exploring the transcriptional landscape of plant circadian rhythms using genome tiling arrays [My Copy] Genome Biology, Vol. 10 (11 February 2009), R17. by Samuel, Steve A. Kay posted to arabidopsis circadian_clock eucariotic_transcription_regulation genetic_regulatory_networks by lptolik on 2009-02-19 09:48:21 as along with 2 people JohnBallam natstreet
	A reexamination of information theory-based methods for DNA-binding site identification [My Copy] BMC Bioinformatics, Vol. 10 (11 February 2009), 57. by Ivan Erill, Michael C. O'Neill posted to e_coli electrostatics genetic_regulatory_networks by lptolik on 2009-02-19 09:38:56 as along with 1 person maximilianh
	ATTED-II provides coexpressed gene networks for Arabidopsis. [My Copy] Nucleic acids research (25 October 2008) by Takeshi Obayashi, Shinpei Hayashi, Motoshi Saeki, Hiroyuki Ohta, Kengo Kinoshita posted to database genetic_regulatory_networks by lptolik on 2009-02-18 12:39:50 as along with 2 people druvus kengg
	Detection of Spatial-Specific Phytochrome Responses Using Targeted Expression of Biliverdin Reductase in Arabidopsis [My Copy] Plant Physiol., Vol. 149, No. 1. (1 January 2009), pp. 424-433. by Sankalpi N. Warnasooriya, Beronda L. Montgomery posted to arabidopsis genetic_regulatory_networks by lptolik on 2009-02-09 15:42:33 as
	GenomeGraphs: integrated genomic data visualization with R. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009) by Steffen Durinck, James Bullard, Paul T. Spellman, Sandrine Dudoit posted to genetic_regulatory_networks r_library software by lptolik on 2009-01-14 17:34:37 as along with 18 people and 1 group operon daforerog jmeppley klo psique rdiaz guhjy nuin thomaskelder pkonings natstreet polivares Zephyrus druvus barriot cisevol neils GeeSharpMinor BergmanLab
	Comparison of multivariate tests for genetic linkage. [My Copy] Human heredity, Vol. 51, No. 3. (2001), pp. 133-144. by C. Amos, M. de Andrade, D. Zhu posted to genetic_regulatory_networks modelling networks by lptolik on 2009-01-08 14:14:31 as
	Structural Identification of Piecewise-Linear Models of Genetic Regulatory Networks [My Copy] Journal of Computational Biology, Vol. 15, No. 10. (2008), pp. 1365-1380. by Riccardo Porreca, Samuel Drulhe, Hidde de Jong, Giancarlo F. Trecate posted to genetic_regulatory_networks modelling by lptolik on 2009-01-07 16:54:04 as
	Alternative routes and mutational robustness in complex regulatory networks [My Copy] Biosystems, Vol. 88, No. 1-2. (March 2007), pp. 163-172. by Andreas Wagner, Jeremiah Wright posted to genetic_regulatory_networks yeast by eldan on 2007-03-28 04:01:50 as along with 2 people kaarsinogen wnpx
	Evolving fuzzy rules to model gene expression. [My Copy] Biosystems (30 April 2006) by Ricardo Linden, Amit Bhaya posted to arabidopsis evolution genetic_regulatory_networks modelling by eldan on 2007-03-28 03:58:45 as along with 4 people gespim dps guhjy bagush
	Potential Energy Landscape and Robustness of A Gene Regulatory Network: Toggle Switch [My Copy] PLoS Computational Biology, Vol. preprint, No. 2007. (1 February 2007), e60.eor. by Keun-Young Kim, Jin Wang posted to genetic_regulatory_networks robustness by eldan on 2007-02-17 20:16:32 as
	Robustness can evolve gradually in complex regulatory gene networks with varying topology. [My Copy] PLoS computational biology, Vol. 3, No. 2. (2 February 2007), e15. by S. Ciliberti, O. C. Martin, A. Wagner posted to evolution genetic_regulatory_networks robustness by eldan on 2007-02-17 20:08:23 as along with 17 people and 4 groups chica biomcgary kaarsinogen ccots indigoviolet emilyhare entropy nickluscombe aswin kengg dolhuis timflutre grahamc shigepong kynn carneiro phoenixzxl EisenLab EBI-regulation SNE Plantandetc
	Dynamic simulations on the Arachidonic Acid Metabolic Network [My Copy] PLoS Computational Biology, Vol. preprint, No. 2007. (1 February 2007), e55.eor. by Kun Yang, Wenzhe Ma, Huanhuan Liang, Qi Ouyang, Chao Tang, Luhua Lai posted to biology genetic_regulatory_networks medicine by eldan on 2007-02-17 03:31:25 as
	Intervention in a family of Boolean networks. [My Copy] Bioinformatics, Vol. 22, No. 2. (15 January 2006), pp. 226-232. by A. Choudhary, A. Datta, M. L. Bittner, E. R. Dougherty posted to genetic_regulatory_networks boolean_networks by eldan on 2007-02-06 01:07:25 as along with 1 person wnpx
	Intervention in context-sensitive probabilistic Boolean networks. [My Copy] Bioinformatics, Vol. 21, No. 7. (1 April 2005), pp. 1211-1218. by R. Pal, A. Datta, M. L. Bittner, E. R. Dougherty posted to genetic_regulatory_networks boolean_networks by eldan on 2007-02-06 01:05:33 as along with 1 person wnpx
	An empirical Bayes approach to inferring large-scale gene association networks. [My Copy] Bioinformatics, Vol. 21, No. 6. (March 2005), pp. 754-764. by J. Schäfer, K. Strimmer posted to genetic_regulatory_networks by eldan on 2007-02-06 00:59:40 as along with 5 people and 1 group gangli wnpx Ao_Li2007 StatAnika tmmurali tulip
	The Origins of Order: Self-Organization and Selection in Evolution [My Copy] (10 June 1993) by Stuart A. Kauffman posted to genetic_regulatory_networks boolean_networks by eldan on 2007-02-03 01:08:20 as along with 18 people and 3 groups kinop adamnellis knuu dlobo Adso sjung bayesian balicea pchiusano voiklis daveh echinotrix spirit_of_numenor kray avo mjoach MarkVanHeeswijk santi515 GEB ComplexAdaptiveSystems ColDyn
	Gene regulatory networks and the evolution of animal body plans. [My Copy] Science, Vol. 311, No. 5762. (10 February 2006), pp. 796-800. by E. H. Davidson, D. H. Erwin posted to genetic_regulatory_networks evolution development by eldan on 2007-02-03 00:57:01 as along with 20 people and 5 groups mjoach dlobo anphony qwermish sWorgan Lauren_Jones bayesian dpollard xico dchughes brixtonmc Liusha margaritis josepe cjeans sujaikumar Garamonfok jtomasch Ema natstreet GEB EisenLab WetBiology G4ID Genetics-of-Gambling
	SYSTEMS BIOLOGY: Less Is More in Modeling Large Genetic Networks [My Copy] Science, Vol. 310, No. 5747. (21 October 2005), pp. 449-451. by Stefan Bornholdt posted to systems_biology modelling genetic_regulatory_networks by eldan on 2007-01-30 23:25:35 as along with 7 people and 1 group jmenche snuppepuppan jmeppley balajis wnpx biosv fishtank Bioinformatics
	Evolving complex dynamics in electronic models of genetic networks. [My Copy] Chaos, Vol. 14, No. 3. (September 2004), pp. 707-715. by J. Mason, P. S. Linsay, J. J. Collins, L. Glass posted to modelling methodology genetic_regulatory_networks by eldan on 2007-01-29 22:55:31 as along with 2 people and 1 group dlobo dbikard GEB
	Qualitative simulation of genetic regulatory networks using piecewise-linear models [My Copy] Bulletin of Mathematical Biology, Vol. V66, No. 2. (17 March 2004), pp. 301-340. by Hidde de Jong, Jean-Luc Gouzé, Cã©line Hernandez, Michel Page, Tewfik Sari, Johannes Geiselmann posted to modelling methodology genetic_regulatory_networks by eldan on 2007-01-25 02:51:05 as
	Boolean formalization of genetic control circuits [My Copy] Journal of Theoretical Biology, Vol. 42, No. 3. (December 1973), pp. 563-585. by Rene Thomas posted to modelling genetic_regulatory_networks boolean_networks by eldan on 2007-01-25 02:45:09 as
	A natural class of robust networks [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 100, No. 15. (22 July 2003), pp. 8710-8714. by Maximino Aldana, Philippe Cluzel posted to network_theory genetic_regulatory_networks by eldan on 2007-01-25 02:40:37 as along with 6 people and 5 groups dlobo tomhebbron kinop jmenche jwdietrich timflutre GEB MathBio Cybernetics Biomedical_Cybernetics AQUA-FONTIS-Study
	Cell Fates as High-Dimensional Attractor States of a Complex Gene Regulatory Network [My Copy] Physical Review Letters, Vol. 94, No. 12. (2005) by Sui Huang, Gabriel Eichler, Yaneer B. Yam, Donald E. Ingber posted to modelling genetic_regulatory_networks by eldan on 2007-01-25 02:29:02 as along with 5 people joseph_x_zhou akraemer wnpx mikaelhuss john_ardelius
	Metabolic stability and epigenesis in randomly constructed genetic nets [My Copy] Journal of Theoretical Biology, Vol. 22, No. 3. (March 1969), pp. 437-467. by S. Kauffman posted to genetic_regulatory_networks boolean_networks by eldan on 2007-01-25 02:25:30 as along with 7 people antonkratz Dangerfc tomhebbron kinop verdicchio wnpx gcalda
	A Gene Regulatory Network Model for Cell-Fate Determination during Arabidopsis thaliana Flower Development That Is Robust and Recovers Experimental Gene Expression Profiles [My Copy] Plant Cell, Vol. 16, No. 11. (1 November 2004), pp. 2923-2939. by Carlos Espinosa-Soto, Pablo Padilla-Longoria, Elena R. Alvarez-Buylla posted to modelling genetic_regulatory_networks arabidopsis by eldan on 2007-01-25 02:21:16 as along with 4 people and 1 group joseph_x_zhou josedavid rklancer Happybene GEB
	Computational strategy for discovering druggable gene networks from genome-wide RNA expression profiles. [My Copy] Pac Symp Biocomput (2006), pp. 559-571. by S. Imoto, Y. Tamada, H. Araki, et al.K. Yasuda, C. G. Print, S. D. Charnock-Jones, D. Sanders, C. J. Savoie, K. Tashiro, S. Kuhara, S. Miyano posted to genetic_regulatory_networks by eldan on 2007-01-23 00:28:47 as along with 2 people tardigrade wnpx
	Inferring genetic regulatory logic from expression data [My Copy] Bioinformatics, Vol. 21, No. 11. (1 June 2005), pp. 2706-2713. by Svetlana Bulashevska, Roland Eils posted to genetic_regulatory_networks by eldan on 2007-01-19 04:06:06 as along with 1 person wnpx
	Modeling and Simulation of Genetic Regulatory Systems: A Literature Review [My Copy] Journal of Computational Biology, Vol. 9, No. 1. (January 2002), pp. 67-103. by H. de Jong posted to modelling methodology genetic_regulatory_networks by eldan on 2007-01-19 00:01:10 as along with 27 people and 6 groups mjoach Borelli qluo antonkratz reyez tlse65 wangbo dlobo jago behindtherabbit cswinburne ggallone softsimu tmmurali bayesian balicea Happybene wnpx kengg noano sstoma josepe dagmar jo_davies roys maburkitt phoenixzxl smac GEB Jarman Lab VirtualPlants Plantandetc compneur
	Inference of genetic regulatory networks under the best-fit extension paradigm [My Copy] (2002) by I. Shmulevich, A. Saarinen, Yli O. Harja, J. Astola posted to methodology genetic_regulatory_networks boolean_networks by eldan on 2007-01-18 22:26:07 as along with 1 person wnpx
	Probabilistic Boolean networks: a rule-based uncertainty model for gene regulatory networks [My Copy] Bioinformatics, Vol. 18, No. 2. (1 February 2002), pp. 261-274. by Ilya Shmulevich, Edward R. Dougherty, Seungchan Kim, Wei Zhang posted to methodology genetic_regulatory_networks boolean_networks by eldan on 2007-01-18 22:25:27 as along with 4 people and 1 group kentz wangbo camster ddahlem dbk-lab
	A model of transcriptional regulatory networks based on biases in the observed regulation rules [My Copy] Complexity, Vol. 7, No. 4. (14 August 2002), pp. 23-40. by Stephen E. Harris, Bruce K. Sawhill, Andrew Wuensche, Stuart Kauffman posted to genetic_regulatory_networks boolean_networks biology by eldan on 2007-01-18 20:47:45 as along with 3 people and 2 groups dlobo camster wnpx GEB dbk-lab
	The role of certain Post classes in Boolean network models of genetic networks. [My Copy] Proc Natl Acad Sci U S A, Vol. 100, No. 19. (16 September 2003), pp. 10734-10739. by I. Shmulevich, H. Lähdesmäki, E. R. Dougherty, J. Astola, W. Zhang posted to technical genetic_regulatory_networks boolean_networks by eldan on 2007-01-18 20:39:25 as along with 1 person and 1 group camster dbk-lab
	The topology of the regulatory interactions predicts the expression pattern of the segment polarity genes in Drosophila melanogaster [My Copy] Journal of Theoretical Biology, Vol. 223 (7 July 2003), pp. 1-18. by Réka Albert, Hans G. Othmer posted to modelling graph_theory genetic_regulatory_networks drosophila boolean_networks by eldan on 2007-01-18 01:16:23 as
	Evolution, Interactions, and Biological Networks [My Copy] PLoS Biology, Vol. 5, No. 1. (1 January 2007), e11. by Joshua S. Weitz, Philip N. Benfey, Ned S. Wingreen posted to network_theory graph_theory genetic_regulatory_networks by eldan on 2007-01-18 00:30:06 as along with 17 people and 1 group Borelli wangbo anphony aalibes cmmorel balajis wnpx cerkut jhatrimatri josepe timothee srfairclough hmk bootsy Ema bpcusack skumagai contact-id
	Eukaryotic cells are dynamically ordered or critical but not chaotic [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 102, No. 38. (20 September 2005), pp. 13439-13444. by Ilya Shmulevich, Stuart A. Kauffman, Maximino Aldana posted to genetic_regulatory_networks boolean_networks by eldan on 2007-01-17 23:31:04 as along with 1 person kentz
	The Role of Redundancy in the Robustness of Random Boolean Networks [My Copy] (11 Jan 2006) by Carlos Gershenson, Stuart A. Kauffman, Ilya Shmulevich posted to genetic_regulatory_networks boolean_networks alife by eldan on 2007-01-17 23:30:23 as along with 1 person mmpita
	Robustness and fragility of Boolean models for genetic regulatory networks [My Copy] Journal of Theoretical Biology, Vol. 235 (27 Jan 2005), pp. 431-449. by Madalena Chaves, Réka Albert, Eduardo D. Sontag posted to genetic_regulatory_networks boolean_networks by eldan on 2007-01-17 23:29:51 as

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boolean_networks	15
modelling	14
arabidopsis	5
methodology	5
evolution	4
networks	4
biology	3
eucariotic_transcription_regulation	3
breast_cancer	2
cancer	2
development	2
drosophila	2
gene_coexpression	2
graph_theory	2
grnmodel	2
journal	2
microarray	2
network_theory	2
r_library	2
review	2
robustness	2
yeast	2
alife	1
bioconductor	1
biomarkers	1
circadian_clock	1
correlation	1
data_analysis	1
dataanalysis	1
database	1
e_coli	1
electrostatics	1
evolvability	1
gene_regulatory_networks	1
genetics	1
gpl	1
grn	1
medicine	1
microarrays	1
network_simulation	1
r	1
silico	1
simulation	1
software	1
statistics	1
systems_biology	1
technical	1
tfbinding	1

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