margaritis's library 251 articles Export

	Transcriptional infidelity promotes heritable phenotypic change in a bistable gene network. [My Copy] PLoS biology, Vol. 7, No. 2. (24 February 2009), e44. by Alasdair J. Gordon, Jennifer A. Halliday, Matthew D. Blankschien, Philip A. Burns, Fumio Yatagai, Christophe Herman posted to bistability fidelity stochasticity transcription by margaritis on 2009-03-09 10:37:52 as along with 8 people and 1 group Winzer ocs katiejclowers biomcgary emptyhb jjray bpcusack VGreiff Morgan Lab-KSU
	Bacterial quorum sensing: signals, circuits, and implications for biofilms and disease. [My Copy] Annual review of biomedical engineering, Vol. 10 (2008), pp. 145-167. by A. Jayaraman, T. K. Wood posted to bistability quorum_sensing review by margaritis on 2009-02-25 12:13:10 as
	Exponential sensitivity of noise-driven switching in genetic networks [My Copy] (15 Nov 2007) by Pankaj Mehta, Ranjan Mukhopadhyay, Ned S. Wingreen posted to bistability by margaritis on 2009-02-25 11:55:47 as
	Translational control of localized mRNAs: restricting protein synthesis in space and time [My Copy] Nature Reviews Molecular Cell Biology, Vol. 9, No. 12., pp. 971-980. by Florence Besse, Anne Ephrussi posted to gene-expression gene-regulation post-transcriptional review by margaritis on 2009-02-24 10:17:30 as along with 2 people raycay3 eskay
	Transcription on nucleosomal templates by RNA polymerase II in vitro: inhibition of elongation with enhancement of sequence-specific pausing. [My Copy] Genes & development, Vol. 5, No. 4. (April 1991), pp. 683-696. by M. G. Izban, D. S. Luse posted to elongation in-vitro nucleosomes transcription by margaritis on 2009-02-23 15:23:35 as
	Evidence for Eviction and Rapid Deposition of Histones upon Transcriptional Elongation by RNA Polymerase II [My Copy] Mol. Cell. Biol., Vol. 24, No. 23. (1 December 2004), pp. 10111-10117. by Marc A. Schwabish, Kevin Struhl posted to elongation fact nucleosomes transcription by margaritis on 2009-02-23 14:48:27 as
	FACT Facilitates Transcription-Dependent Nucleosome Alteration [My Copy] Science, Vol. 301, No. 5636. (22 August 2003), pp. 1090-1093. by Rimma Belotserkovskaya, Sangtaek Oh, Vladimir A. Bondarenko, George Orphanides, Vasily M. Studitsky, Danny Reinberg posted to elongation fact nucleosomes transcription by margaritis on 2009-02-23 14:27:02 as along with 1 person skoch3
	Factor-stimulated RNA polymerase II transcribes at physiological elongation rates on naked DNA but very poorly on chromatin templates [My Copy] J. Biol. Chem., Vol. 267, No. 19. (5 July 1992), pp. 13647-13655. by M. G. Izban, D. S. Luse posted to chormatin elongation in-vitro nucleosomes transcription by margaritis on 2009-02-23 12:26:20 as
	Absolute mRNA levels and transcriptional initiation rates in Saccharomyces cerevisiae. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 93, No. 11. (28 May 1996), pp. 5208-5212. by V. Iyer, K. Struhl posted to experimental initation_rate initiation transcription by margaritis on 2009-02-23 12:21:43 as
	Halting a cellular production line: responses to ribosomal pausing during translation. [My Copy] Biology of the cell / under the auspices of the European Cell Biology Organization, Vol. 99, No. 9. (September 2007), pp. 475-487. by J. Ross Buchan, Ian Stansfield posted to pauses traffic_model translation by margaritis on 2009-02-05 15:15:43 as along with 2 people Vincent_Rouilly saunders
	Step-wise formation of eukaryotic double-row polyribosomes and circular translation of polysomal mRNA [My Copy] Nucl. Acids Res., Vol. 36, No. 8. (1 May 2008), pp. 2476-2488. by Gelina S. Kopeina, Zhanna A. Afonina, Kira V. Gromova, Vladimir A. Shirokov, Victor D. Vasiliev, Alexander S. Spirin posted to polysomes ribosomes translation by margaritis on 2009-02-05 15:11:58 as
	The native 3D organization of bacterial polysomes. [My Copy] Cell, Vol. 136, No. 2. (23 January 2009), pp. 261-271. by Florian Brandt, Stephanie A. Etchells, Julio O. Ortiz, Adrian H. Elcock, F. Ulrich Hartl, Wolfgang Baumeister posted to polysomes ribosomes translation by margaritis on 2009-02-05 15:09:51 as along with 2 people noraziz kirasato
	A single-molecule technique to study sequence-dependent transcription pausing. [My Copy] Biophysical journal, Vol. 87, No. 6. (December 2004), pp. 3945-3953. by A. Shundrovsky, T. J. Santangelo, J. W. Roberts, M. D. Wang posted to elongation pause pauses pausing rnap single-molecule transcription by margaritis on 2009-02-03 18:04:20 as
	Dynamical Quorum Sensing and Synchronization in Large Populations of Chemical Oscillators [My Copy] Science, Vol. 323, No. 5914. (30 January 2009), pp. 614-617. by Annette F. Taylor, Mark R. Tinsley, Fang Wang, Zhaoyang Huang, Kenneth Showalter posted to gene-circuits quorum_sensing syncronization by margaritis on 2009-02-03 17:17:53 as along with 3 people hsekiguc kshundyak samubernard
	Structure of Eukaryotic RNA Polymerases [My Copy] Annual Review of Biophysics, Vol. 37, No. 1. (2008), pp. 337-352. by P. Cramer, K. J. Armache, S. Baumli, et al.S. Benkert, F. Brueckner, C. Buchen, G. E. Damsma, S. Dengl, S. R. Geiger, A. J. Jasiak, A. Jawhari, S. Jennebach, T. Kamenski, H. Kettenberger, C. D. Kuhn, E. Lehmann, K. Leike, J. F. Sydow, A. Vannini posted to rnap structure by margaritis on 2009-01-26 15:04:06 as along with 2 people gotant6884 zwang
	Functional architecture of RNA polymerase I. [My Copy] Cell, Vol. 131, No. 7. (28 December 2007), pp. 1260-1272. by C. D. Kuhn, S. R. Geiger, S. Baumli, et al.M. Gartmann, J. Gerber, S. Jennebach, T. Mielke, H. Tschochner, R. Beckmann, P. Cramer posted to rnap structure by margaritis on 2009-01-26 14:47:17 as
	A tunable synthetic mammalian oscillator [My Copy] Nature, Vol. 457, No. 7227., pp. 309-312. by Marcel Tigges, Tatiana T. Marquez-Lago, Jörg Stelling, Martin Fussenegger posted to gene-expression gene-networks gene-regulation oscillations by margaritis on 2009-01-19 15:17:03 as along with 7 people and 1 group jasonpark1 raik jbhiatt samubernard raiyar jec105 Vincent_Rouilly BP205
	A fast, robust and tunable synthetic gene oscillator. [My Copy] Nature (29 October 2008) by Jesse Stricker, Scott Cookson, Matthew R R. Bennett, William H H. Mather, Lev S S. Tsimring, Jeff Hasty posted to gene-expression gene-networks gene-regulation oscillations by margaritis on 2009-01-19 15:16:48 as along with 12 people and 3 groups sbottani jasonpark1 austin lflorez stasaki stringertheory allysonlister joseph_x_zhou yxue jbhiatt grahamc dbikard BP205 bioNetwork_sysBio SynBioSys
	Robust, Tunable Biological Oscillations from Interlinked Positive and Negative Feedback Loops [My Copy] Science, Vol. 321, No. 5885. (4 July 2008), pp. 126-129. by Tony Y. Tsai, Yoon S. Choi, Wenzhe Ma, Joseph R. Pomerening, Chao Tang, James E. Ferrell posted to gene-expression gene-networks gene-regulation oscillations by margaritis on 2009-01-19 15:16:18 as along with 11 people and 3 groups balabu jjray jasonpark1 t_richardson agonzale madhadron Borelli kentsis caseybrown stringertheory dbikard Synthetic Biology BP205 SynBioSys
	Synthetic biology: The yin and yang of nature [My Copy] Nature, Vol. 457, No. 7227. (15 January 2009), pp. 271-272. by Jeff Gore, Alexander van Oudenaarden posted to gene-expression gene-regulation oscillations by margaritis on 2009-01-19 15:09:31 as along with 3 people and 1 group jasonpark1 ackman jjray BP205
	Breaking barriers to transcription elongation [My Copy] Nature Reviews Molecular Cell Biology, Vol. 7, No. 8., pp. 557-567. by Abbie Saunders, Leighton J. Core, John T. Lis posted to elongation gene-expression gene-regulation review transcription by margaritis on 2009-01-12 15:21:10 as along with 1 person arthur3131
	Determination of cell fate selection during phage lambda infection [My Copy] Proceedings of the National Academy of Sciences (19 December 2008) by François St-Pierre, Drew Endy posted to cell_fate lambda_phage by margaritis on 2009-01-12 14:40:06 as along with 4 people austin slumpy42 kshundyak stk
	TRANSCRIPTION: Gene Expression--Where to Start? [My Copy] Science, Vol. 322, No. 5909. (19 December 2008), pp. 1804-1805. by Stephen Buratowski posted to news_and_views review transcription by margaritis on 2009-01-12 12:19:40 as along with 5 people and 1 group tonamswish fhalbrit abizar inesdesantiago skoch3 Koch_Lab
	Kinetic proofreading of gene activation by chromatin remodeling [My Copy] HFSP Journal, Vol. 2, No. 3. (2008), pp. 167-170. by R. Blossey, H. Schiessel posted to chromatin gene-expression gene-regulation kinetic_proofreading proofreading by margaritis on 2009-01-07 18:32:40 as along with 1 person lptolik
	Effects of the bacterial transcription-repair coupling factor during transcription of DNA containing non-bulky lesions [My Copy] DNA Repair, Vol. 7, No. 10. (01 October 2008), pp. 1670-1679. by A. Smith, N. Savery posted to elongation pauses rnap transcription by margaritis on 2008-12-05 10:43:19 as
	BASIC MECHANISMS OF TRANSCRIPT ELONGATION AND ITS REGULATION [My Copy] Annual Review of Biochemistry, Vol. 66, No. 1. (1997), pp. 117-172. by S. M. Uptain, C. M. Kane, M. J. Chamberlin posted to polymrase review transcription by margaritis on 2008-11-26 15:45:48 as
	Jamming the ratchet of transcription [My Copy] Nature Structural & Molecular Biology, Vol. 15, No. 8., pp. 777-779. by Vladimir Svetlov, Evgeny Nudler posted to fidelity polymerase review transcription views by margaritis on 2008-11-26 15:31:25 as
	Stimulation of RNA polymerase II transcript cleavage activity contributes to maintain transcriptional fidelity in yeast [My Copy] Genes to Cells, Vol. 12, No. 5. (May 2007), pp. 547-559. by Koyama, Hiroshi, Ito, et al. Takahiro, Nakanishi, Toshiyuki, Sekimizu, Kazuhisa posted to fidelity mutation polymerase transcritpion by margaritis on 2008-11-26 15:26:15 as
	RNA polymerase II subunit Rpb9 is important for transcriptional fidelity in vivo. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 103, No. 9. (28 February 2006), pp. 3268-3273. by N. K. Nesser, D. O. Peterson, D. K. Hawley posted to fidelity mutation rnap transcription by margaritis on 2008-11-26 15:20:33 as
	RNA Polymerase Pausing Regulates Translation Initiation by Providing Additional Time for TRAP-RNA Interaction [My Copy] Molecular Cell, Vol. 24, No. 4. (17 November 2006), pp. 547-557. by A. Yakhnin, H. Yakhnin, P. Babitzke posted to elongation pausing rnap transcription by margaritis on 2008-11-21 13:41:04 as
	DNA Sequences in gal Operon Override Transcription Elongation Blocks [My Copy] Journal of Molecular Biology, Vol. 382, No. 4. (17 October 2008), pp. 843-858. by D. Lewis, N. Komissarova, P. Le, M. Kashlev, S. Adhya posted to backtracking experiment pauses rnap by margaritis on 2008-10-31 09:04:16 as along with 1 person coela
	Thermal Probing of E. coli RNA Polymerase Off-Pathway Mechanisms [My Copy] Journal of Molecular Biology, Vol. 382, No. 3. (10 October 2008), pp. 628-637. by Y. Mejia, H. Mao, N. Forde, C. Bustamante posted to backtracking experiments rnap by margaritis on 2008-10-30 10:15:20 as along with 1 person stk
	Predator-Prey Cycles from Resonant Amplification of Demographic Stochasticity [My Copy] Physical Review Letters, Vol. 94, No. 21. (2005) by A. J. Mckane, T. J. Newman posted to fluctuations predator-prey resonance stochasticity theory by margaritis on 2008-10-28 11:52:50 as
	A Stochastic Single-Molecule Event Triggers Phenotype Switching of a Bacterial Cell [My Copy] Science, Vol. 322, No. 5900. (17 October 2008), pp. 442-446. by Paul J. Choi, Long Cai, Kirsten Frieda, X. Sunney Xie posted to bistability ecoli gene-expression lac-operon single-molecule stochasticity by margaritis on 2008-10-21 14:41:22 as along with 11 people and 1 group yyfwuhan balabu pkm stasaki jbhiatt lflorez jonesn cactus alexknight jjray samjlord moernerlab
	Inhibition of a Transcriptional Pause by RNA Anchoring to RNA Polymerase [My Copy] Molecular Cell, Vol. 31, No. 5. (05 September 2008), pp. 683-694. by N. Komissarova, T. Velikodvorskaya, R. Sen, R. King, S. Banikmaiti, R. Weisberg posted to backtracking elongation pausing polymerase by margaritis on 2008-10-16 11:55:44 as
	Stacked?Unstacked Equilibrium at the Nick Site of DNA [My Copy] Journal of Molecular Biology, Vol. 342, No. 3. (17 September 2004), pp. 775-785. by E. Protozanova, P. Yakovchuk, M. Frankkamenetskii posted to dna free_energy stacking by margaritis on 2008-10-03 11:49:19 as
	The energy relay: a proofreading scheme based on dynamic cooperativity and lacking all characteristic symptoms of kinetic proofreading in DNA replication and protein synthesis [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 77, No. 9. (1980), pp. 5248-5252. by J. J. Hopfield posted to kinetic_proofreading theory by margaritis on 2008-09-30 17:55:11 as
	Alternative to the steady-state method: derivation of reaction rates from first-passage times and pathway probabilities [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 84, No. 3. (February 1987), pp. 663-667. by J. Ninio posted to first_passage_times reaction_rates theory by margaritis on 2008-09-30 14:32:28 as
	Kinetic amplification of enzyme discrimination. [My Copy] Biochimie, Vol. 57, No. 5. (1975), pp. 587-595. by J. Ninio posted to kinetic_proofreading theory by margaritis on 2008-09-29 14:38:03 as along with 1 person jjray
	Kinetic proofreading in T-cell receptor signal transduction. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 92, No. 11. (23 May 1995), pp. 5042-5046. by T. W. McKeithan posted to kinetic_proofreading model proofreading t-cell by margaritis on 2008-09-29 14:21:37 as
	Lac repressor hinge flexibility and DNA looping: single molecule kinetics by tethered particle motion [My Copy] Nucl. Acids Res., Vol. 34, No. 12. (11 July 2006), pp. 3409-3420. by Francesco Vanzi, Chiara Broggio, Leonardo Sacconi, Francesco S. Pavone posted to dna_loop single-molecule by margaritis on 2008-09-26 15:30:29 as
	The Vibrio fischeri luminescence gene activator LuxR is a membrane-associated protein. [My Copy] Journal of bacteriology, Vol. 175, No. 22. (November 1993), pp. 7307-7312. by D. Kolibachuk, E. P. Greenberg posted to luxr quorum_sensing vibrio_fischeri by margaritis on 2008-09-22 12:16:41 as
	Quorum-sensing in Gram-negative bacteria [My Copy] FEMS Microbiology Reviews, Vol. 25, No. 4. (2001), pp. 365-404. by Neil A. Whitehead, Anne M. L. Barnard, Holly Slater, Natalie J. L. Simpson, George P. C. Salmond posted to quorum_sensing review by margaritis on 2008-09-22 11:28:34 as along with 1 person sergiun
	Macromolecular Crowding and Confinement: Biochemical, Biophysical, and Potential Physiological Consequences* [My Copy] Annual Review of Biophysics, Vol. 37, No. 1. (2008), pp. 375-397. by Huan X. Zhou, Germán Rivas, Allen P. Minton posted to crowding reaction_rates theory by margaritis on 2008-09-16 12:15:10 as along with 6 people kedmond ARobson mhellmann cafeandaman flbarroso ras
	Synchronizing genetic relaxation oscillators by intercell signaling. [My Copy] Proc Natl Acad Sci U S A, Vol. 99, No. 2. (22 January 2002), pp. 679-684. by D. McMillen, N. Kopell, J. Hasty, J. J. Collins posted to gene-circuits quorum_sensing theory by margaritis on 2008-09-05 12:05:34 as along with 1 person rklancer
	Modeling a synthetic multicellular clock: repressilators coupled by quorum sensing. [My Copy] Proc Natl Acad Sci U S A, Vol. 101, No. 30. (27 July 2004), pp. 10955-10960. by J. Garcia-Ojalvo, M. B. Elowitz, S. H. Strogatz posted to gene-circuits quorum_sensing theory by margaritis on 2008-09-05 11:59:49 as along with 4 people and 1 group rklancer BUiGEM johncumbers mesominimax BUiGEM
	The stochastic nature of biochemical networks. [My Copy] Current opinion in biotechnology (25 July 2008) by Vahid Shahrezaei, Peter S S. Swain posted to fluctuations gene-expression noise review stochasticity by margaritis on 2008-09-04 16:17:00 as along with 1 person erel10
	Noise Reduction by Diffusional Dissipation in a Minimal Quorum Sensing Motif [My Copy] PLoS Comput Biol, Vol. 4, No. 8. (2008), e1000167. by Yu Tanouchi, Dennis Tu, Jungsang Kim, Lingchong You posted to bacteria quorum_sensing theory by margaritis on 2008-09-03 15:36:25 as along with 4 people raik erel10 emptyhb jjray
	QUORUM SENSING: Cell-to-Cell Communication in Bacteria [My Copy] Annual Review of Cell and Developmental Biology, Vol. 21, No. 1. (2005), pp. 319-346. by Christopher M. Waters, Bonnie L. Bassler posted to bacteria quorum_sensing review by margaritis on 2008-09-03 14:27:23 as along with 4 people and 1 group BUiGEM CareyNadell superpyrin dbikard BUiGEM
	Quorum Sensing in Nitrogen-Fixing Rhizobia [My Copy] Microbiol. Mol. Biol. Rev., Vol. 67, No. 4. (1 December 2003), pp. 574-592. by Juan E. Gonzalez, Melanie M. Marketon posted to bacteria quorum_sensing review by margaritis on 2008-09-03 14:22:22 as along with 1 person maren

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noise	78
stochasticity	74
gene-expression	72
fluctuations	70
transcription	49
review	32
theory	29
experiment	28
rnap	27
gene-networks	26
proofreading	21
elongation	20
gene-regulation	20
bistability	14
yeast	14
bsubtilis	13
quorum_sensing	12
dna	10
network-motifs	10
bacteria	9
bursting	9
kinetic_proofreading	9
pauses	9
backtracking	8
gene-circuits	8
regulation	8
fidelity	7
pause	7
ecoli	6
single-molecule	6
systems_biology	6
competence	5
development	5
initiation	5
nucleosomes	5
single-cell	5
chromatin	4
cleavage	4
news_and_views	4
oscillations	4
pol_ii	4
polymerase	4
promoter	4
robustness	4
structure	4
translation	4
vibrio_fischeri	4
complexity	3
evolution	3
pausing	3
post-transcriptional	3
stochastic_simulations	3
synthetic-biology	3
adaptation	2
autoregulation	2
cell_fate	2
cell_singalling	2
commentary	2
desicion_making	2
dna_replication	2
epigenetics	2
error_rate	2
excitability	2
fact	2
hiv	2
information-theory	2
in-vitro	2
model	2
mutation	2
networks	2
organisation	2
polysomes	2
reaction_rates	2
ribosomes	2
rna	2
spectra	2
tasep	2
traffic_model	2
transcription-factor	2
transcritpion	2
views	2
active	1
active_site	1
adaptability	1
archaea_pol	1
binding	1
biofilm	1
catalysis_mechanism	1
cell_division	1
chormatin	1
chromosomes	1
control	1
control_theory	1
criticality	1
crowding	1
dna_loop	1
dnap	1
dna-repair	1
enzymes	1
error-correction	1
evolvability	1
experimental	1
experiments	1
extrinsic	1
eykaryotic	1
first_passage_times	1
flagela	1
free_energy	1
fret	1
genome	1
glucose_galactose	1
gre	1
grea	1
growth_rate	1
hairpin-stabilised	1
hierarchical	1
human	1
initation_rate	1
in-vivo	1
lac-operon	1
lambda_phage	1
low_pass_filter	1
l-phage	1
luxr	1
meiosis	1
mrna	1
mrnap	1
multistability	1
negative_feedback	1
netwrok	1
noise-frequency	1
nonequilibrium	1
olfactory_genes	1
perspective	1
phenotype	1
poissonian	1
polymrase	1
population_density	1
potential	1
predator-prey	1
promoter-proximal	1
rate_reactions	1
rearrangement	1
regulatory_network	1
replication	1
resonance	1
rnai	1
simulations	1
sporulation	1
srna	1
stacking	1
stalling	1
syncronization	1
t-cell	1
termination	1
tfiis	1
tfs	1
toggle-switch	1
topoisomerase	1
uracil	1
vision	1

margaritis's library 251 articles Export

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