-
1
-
-
70350452758
-
Understanding modularity in molecular networks requires dynamics
-
Alexander, R. P., Philip, M. K., Emonet, T., and Gerstein, M. B. (2009). Understanding modularity in molecular networks requires dynamics. Sci. Signal. 2, e44. doi: 10.1126/scisignal.281pe44.
-
(2009)
Sci. Signal
, vol.2
-
-
Alexander, R.P.1
Philip, M.K.2
Emonet, T.3
Gerstein, M.B.4
-
2
-
-
0141484562
-
Biological networks: the tinkerer as an engineer
-
Alon, U. (2003). Biological networks: the tinkerer as an engineer. Science 301, 1866-1867. doi:10.1126/science.1089072.
-
(2003)
Science
, vol.301
, pp. 1866-1867
-
-
Alon, U.1
-
4
-
-
56149104549
-
Floral morphogenesis: stochastic explorations of a gene network epigenetic landscape
-
Álvarez Buylla, E. R., Chaos, A., Aldana, M., Benítez, M., Cortes-Poza, Y., Espinosa-Soto, C., et al. (2008). Floral morphogenesis: stochastic explorations of a gene network epigenetic landscape. PLoS ONE 3:e3626. doi:10.1371/journal.pone.0003626.
-
(2008)
PLoS ONE
, vol.3
-
-
Álvarez Buylla, E.R.1
Chaos, A.2
Aldana, M.3
Benítez, M.4
Cortes-Poza, Y.5
Espinosa-Soto, C.6
-
5
-
-
9644284380
-
Inference of signaling and gene regulatory networks by steady-state perturbation experiments: structure and accuracy
-
Andrec, M., Kholodenko, B. N., Levy, R. M., and Sontag, E. D. (2005). Inference of signaling and gene regulatory networks by steady-state perturbation experiments: structure and accuracy. J. Theor. Biol. 232, 427-441. doi:10.1016/j.jtbi.2004.08.022.
-
(2005)
J. Theor. Biol
, vol.232
, pp. 427-441
-
-
Andrec, M.1
Kholodenko, B.N.2
Levy, R.M.3
Sontag, E.D.4
-
6
-
-
33745454125
-
Synthetic biology: new engineering rules for an emerging discipline
-
Andrianantoandro, E., Basu, S., Karig, D. K., and Weiss, R. (2006). Synthetic biology: new engineering rules for an emerging discipline. Mol. Syst. Biol. 2, 2006. doi:10.1038/msb4100073.
-
(2006)
Mol. Syst. Biol
, vol.2
, pp. 2006
-
-
Andrianantoandro, E.1
Basu, S.2
Karig, D.K.3
Weiss, R.4
-
7
-
-
84901742537
-
Quantitative genome-wide genetic interaction screens reveal global epistatic relationships of protein complexes in Escherichia coli
-
Babu, M., Arnold, R., Cedoljub Bundalovic-Torma, C., Gagarinova, A., Wong, K. S., Kumar, A., et al. (2014). Quantitative genome-wide genetic interaction screens reveal global epistatic relationships of protein complexes in Escherichia coli. PLoS Genet. 10:e1004120. doi:10.1371/journal.pgen.1004120.
-
(2014)
PLoS Genet
, vol.10
-
-
Babu, M.1
Arnold, R.2
Cedoljub Bundalovic-Torma, C.3
Gagarinova, A.4
Wong, K.S.5
Kumar, A.6
-
8
-
-
36048944020
-
Kinetic insulation as an effective mechanism for achieving pathway specificity in intracellular signaling networks
-
Behar, M., Dohlman, H. G., and Elston, T. C. (2007). Kinetic insulation as an effective mechanism for achieving pathway specificity in intracellular signaling networks. Proc. Natl. Acad. Sci. U.S.A. 104, 16146-16151. doi:10.1073/pnas.0703894104.
-
(2007)
Proc. Natl. Acad. Sci. U.S.A
, vol.104
, pp. 16146-16151
-
-
Behar, M.1
Dohlman, H.G.2
Elston, T.C.3
-
9
-
-
77957271217
-
Dynamic module redundancy confers robustness to the gene regulatory network involved in hair patterning of Arabidopsis epidermis
-
Benítez, M., and Álvarez Buylla, E. R. (2010). Dynamic module redundancy confers robustness to the gene regulatory network involved in hair patterning of Arabidopsis epidermis. Biosystems 102, 11-15. doi:10.1016/j.biosystems.2010.07.007.
-
(2010)
Biosystems
, vol.102
, pp. 11-15
-
-
Benítez, M.1
Álvarez Buylla, E.R.2
-
10
-
-
0034891848
-
Integrative data mining: the new direction in bioinformatics
-
Bertone, P., and Gerstein, M. (2001). Integrative data mining: the new direction in bioinformatics. IEEE Eng. Med. Biol. Mag. 20, 33-40. doi:10.1109/51.940042.
-
(2001)
IEEE Eng. Med. Biol. Mag
, vol.20
, pp. 33-40
-
-
Bertone, P.1
Gerstein, M.2
-
11
-
-
67149138163
-
Protein sequestration generates a flexible ultrasensitive response in a genetic network
-
Buchler, N. E., and Cross, F. R. (2009). Protein sequestration generates a flexible ultrasensitive response in a genetic network. Mol. Syst. Biol. 5, 272. doi:10.1038/msb.2009.30.
-
(2009)
Mol. Syst. Biol
, vol.5
, pp. 272
-
-
Buchler, N.E.1
Cross, F.R.2
-
12
-
-
56949098506
-
Molecular titration and ultrasensitivity in regulatory networks
-
Buchler, N. E., and Louis, M. (2008). Molecular titration and ultrasensitivity in regulatory networks. J. Mol. Biol. 384, 1106-1119. doi:10.1016/j.jmb.2008.09.079.
-
(2008)
J. Mol. Biol
, vol.384
, pp. 1106-1119
-
-
Buchler, N.E.1
Louis, M.2
-
13
-
-
77749246295
-
Abduction and asylum in the lives of transcription factors
-
Burger, A., Walczak, A. M., and Wolynes, P. G. (2010). Abduction and asylum in the lives of transcription factors. Proc. Natl. Acad. Sci. U.S.A. 107, 4016-4021. doi:10.1073/pnas.0915138107.
-
(2010)
Proc. Natl. Acad. Sci. U.S.A
, vol.107
, pp. 4016-4021
-
-
Burger, A.1
Walczak, A.M.2
Wolynes, P.G.3
-
14
-
-
77956652264
-
Programming cells: towards an automated 'genetic compiler'
-
Clancy, K., and Voigt, C. A. (2010). Programming cells: towards an automated 'genetic compiler'. Curr. Opin. Biotechnol. 21, 572-581. doi:10.1016/j.copbio.2010.07.005.
-
(2010)
Curr. Opin. Biotechnol
, vol.21
, pp. 572-581
-
-
Clancy, K.1
Voigt, C.A.2
-
15
-
-
84879052409
-
The evolutionary origins of modularity
-
Clune, J., Mouret, J.-B., and Lipson, H. (2013). The evolutionary origins of modularity. Proc. Biol. Soc. 280, 20122863. doi:10.1098/rspb.2012.2863.
-
(2013)
Proc. Biol. Soc
, vol.280
-
-
Clune, J.1
Mouret, J.-B.2
Lipson, H.3
-
16
-
-
84868625270
-
Queueing up for enzymatic processing: correlated signaling through coupled degradation
-
Cookson, N. A., Mather, W. H., Danino, T., Mondragon-Palomino, O., Williams, R. J., Tsimring, L. S., et al. (2011). Queueing up for enzymatic processing: correlated signaling through coupled degradation. Mol. Syst. Biol. 7, 1. doi:10.1038/msb.2011.94.
-
(2011)
Mol. Syst. Biol
, vol.7
, pp. 1
-
-
Cookson, N.A.1
Mather, W.H.2
Danino, T.3
Mondragon-Palomino, O.4
Williams, R.J.5
Tsimring, L.S.6
-
17
-
-
85042577730
-
'The impact of retroactivity on the behavior of biomolecular systems,'
-
eds H. Koeppl, G. Setti, M. di Bernardo, and D. Densmore (New York, NY: Springer)
-
Del Vecchio, D. (2011). "The impact of retroactivity on the behavior of biomolecular systems," in Design and Analysis of Biomolecular Circuits, eds H. Koeppl, G. Setti, M. di Bernardo, and D. Densmore (New York, NY: Springer), 161-181.
-
(2011)
Design and Analysis of Biomolecular Circuits
, pp. 161-181
-
-
Del Vecchio, D.1
-
18
-
-
84887620741
-
A control theoretic framework for modular analysis and design of biomolecular networks
-
Del Vecchio, D. (2013). A control theoretic framework for modular analysis and design of biomolecular networks. Ann. Rev. Control 37, 333-345. doi:10.1016/j.arcontrol.2013.09.011.
-
(2013)
Ann. Rev. Control
, vol.37
, pp. 333-345
-
-
Del Vecchio, D.1
-
19
-
-
39149113411
-
Modular cell biology: retroactivity and insulation
-
Del Vecchio, D., Ninfa, A. J., and Sontag, E. D. (2008). Modular cell biology: retroactivity and insulation. Mol. Syst. Bio. 4, 161. doi:10.1038/msb4100204.
-
(2008)
Mol. Syst. Bio
, vol.4
, pp. 161
-
-
Del Vecchio, D.1
Ninfa, A.J.2
Sontag, E.D.3
-
20
-
-
84860691613
-
'A contraction theory approach to singularly perturbed systems with application to retroactivity attenuation,'
-
(DCE-ECC)
-
Del Vecchio, D., and Slotine, J.-J. (2011). "A contraction theory approach to singularly perturbed systems with application to retroactivity attenuation," in 50 IEEE Conference on Decision and Control and European Control Conference (DCE-ECC), 5831-5836. doi:10.1109/CDC.2011.6160340.
-
(2011)
50 IEEE Conference on Decision and Control and European Control Conference
, pp. 5831-5836
-
-
Del Vecchio, D.1
Slotine, J.-J.2
-
21
-
-
28544451327
-
Foundations for engineering biology
-
Endy, D. (2005). Foundations for engineering biology. Nature 438, 449-453. doi:10.1038/nature04342.
-
(2005)
Nature
, vol.438
, pp. 449-453
-
-
Endy, D.1
-
22
-
-
0030445778
-
Tripping the switch fantastic: how a protein kinase cascade can convert graded inputs into switch-like outputs
-
Ferrell, J. E. J. (1996). Tripping the switch fantastic: how a protein kinase cascade can convert graded inputs into switch-like outputs. Trends Biochem. Sci. 21, 460-466.
-
(1996)
Trends Biochem. Sci
, vol.21
, pp. 460-466
-
-
Ferrell, J.E.J.1
-
23
-
-
77950803551
-
'Design of insulating devices for in vitro synthetic circuits,'
-
(CDC/CCC 2009)
-
Franco, E., Del Vecchio, D., and Murray, R. M. (2009). "Design of insulating devices for in vitro synthetic circuits," in Proceedings of the 48th IEEE Conference on Decision and Control, 2009 Held Jointly with the 2009 28th Chinese Control Conference (CDC/CCC 2009), 4584-4589. doi:10.1109/CDC.2009.5400523.
-
(2009)
Proceedings of the 48th IEEE Conference on Decision and Control, 2009 Held Jointly with the 2009 28th Chinese Control Conference
, pp. 4584-4589
-
-
Franco, E.1
Del Vecchio, D.2
Murray, R.M.3
-
24
-
-
78651299341
-
Regulondb (version 7.0): transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (gensor units)
-
Gama-Castro, S., Salgado, H., Peralta-Gil, M., Santos-Zavaleta, A., Muniz-Rascado, L., Solano-Lira, H., et al. (2010). Regulondb (version 7.0): transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (gensor units). Nucleic Acids Res. 39, 1-8. doi:10.1093/nar/gkq1110.
-
(2010)
Nucleic Acids Res
, vol.39
, pp. 1-8
-
-
Gama-Castro, S.1
Salgado, H.2
Peralta-Gil, M.3
Santos-Zavaleta, A.4
Muniz-Rascado, L.5
Solano-Lira, H.6
-
25
-
-
0023805741
-
Negative effect of the transcriptional activator GAL4
-
Gill, G., and Ptashne, M. (1988). Negative effect of the transcriptional activator GAL4. Nature 334, 721-724. doi:10.1038/334721a0.
-
(1988)
Nature
, vol.334
, pp. 721-724
-
-
Gill, G.1
Ptashne, M.2
-
26
-
-
0001424903
-
An amplified sensitivity arising from covalent modification in biological systems
-
Goldbeter, A., and Koshland, D. E. Jr. (1981). An amplified sensitivity arising from covalent modification in biological systems. Proc. Natl. Acad. Sci. U.S.A. 78, 6840-6844. doi:10.1073/pnas.78.11.6840.
-
(1981)
Proc. Natl. Acad. Sci. U.S.A
, vol.78
, pp. 6840-6844
-
-
Goldbeter, A.1
Koshland, D.E.2
-
27
-
-
84897463052
-
Modular composition of gene transcription networks
-
Gyorgy, A., and Del Vecchio, D. (2014). Modular composition of gene transcription networks. PLoS Comput. Biol. 10:e1003486. doi:10.1371/journal.pcbi.1003486.
-
(2014)
PLoS Comput. Biol
, vol.10
-
-
Gyorgy, A.1
Del Vecchio, D.2
-
28
-
-
0037402339
-
Is modularity necessary for evolvability? Remarks on the relationship between pleiotropy and evolvability
-
Hansen, T. F. (2003). Is modularity necessary for evolvability? Remarks on the relationship between pleiotropy and evolvability. Biosystems 69, 83-94. doi:10.1016/S0303-2647(02)00132-6.
-
(2003)
Biosystems
, vol.69
, pp. 83-94
-
-
Hansen, T.F.1
-
29
-
-
0033518234
-
From molecular to modular cell biology
-
Hartwell, L. H. (1999). From molecular to modular cell biology. Nature 402(Suppl.), C47-C52. doi:10.1038/35011540.
-
(1999)
Nature
, vol.402
, pp. C47-C52
-
-
Hartwell, L.H.1
-
31
-
-
84905694233
-
'Trade-offs between retroactivity and noise in connected transcriptional components,'
-
(ACC)
-
Herath, N., and Del Vecchio, D. (2014). "Trade-offs between retroactivity and noise in connected transcriptional components," in American Control Conference (ACC), 3405-3410. doi:10.1109/ACC.2014.6859174.
-
(2014)
American Control Conference
, pp. 3405-3410
-
-
Herath, N.1
Del Vecchio, D.2
-
32
-
-
84872432963
-
Competition for IL-2 between regulatory and effector T cells to chisel immune responses
-
Höfer, T., Krichevsky, O., and Altan-Bonnet, G. (2012). Competition for IL-2 between regulatory and effector T cells to chisel immune responses. Front. Immunol. 3:268. doi:10.3389/fimmu.2012.00268.
-
(2012)
Front. Immunol
, vol.3
, pp. 268
-
-
Höfer, T.1
Krichevsky, O.2
Altan-Bonnet, G.3
-
33
-
-
33745780500
-
Network motifs: structure does not determine function
-
Ingram, P. J., Stumpf, M. P., and Stark, J. (2006). Network motifs: structure does not determine function. BMC Genomics 7:108. doi:10.1186/1471-2164-7-108.
-
(2006)
BMC Genomics
, vol.7
, pp. 108
-
-
Ingram, P.J.1
Stumpf, M.P.2
Stark, J.3
-
34
-
-
77950814624
-
"On the compromise between retroactivity attenuation and noise amplification in gene regulatory networks,"
-
Jayanthi, S., and Del Vecchio, D. (2009). "On the compromise between retroactivity attenuation and noise amplification in gene regulatory networks," in Proceedings of the 48th IEEE Conference on Decision and Control, 2009 Held Jointly with the 2009 28th Chinese Control Conference, 4565-4571. doi:10.1109/CDC.2009.5400631.
-
(2009)
Proceedings of the 48th IEEE Conference on Decision and Control, 2009 Held Jointly with the 2009 28th Chinese Control Conference
, pp. 4565-4571
-
-
Jayanthi, S.1
Del Vecchio, D.2
-
35
-
-
79953769431
-
Retroactivity attenuation in bio-molecular systems based on timescale separation
-
Jayanthi, S., and Del Vecchio, D. (2011). Retroactivity attenuation in bio-molecular systems based on timescale separation. IEEE Trans. Automat. Contr. 56, 748-761. doi:10.1109/TAC.2010.2069631.
-
(2011)
IEEE Trans. Automat. Contr
, vol.56
, pp. 748-761
-
-
Jayanthi, S.1
Del Vecchio, D.2
-
36
-
-
84864462753
-
Tuning genetic clocks employing DNA binding sites
-
Jayanthi, S., and Del Vecchio, D. (2012). Tuning genetic clocks employing DNA binding sites. PLoS ONE 7:e41019. doi:10.1371/journal.pone.0041019.
-
(2012)
PLoS ONE
, vol.7
-
-
Jayanthi, S.1
Del Vecchio, D.2
-
37
-
-
84882676796
-
Retroactivity controls the temporal dynamics of gene transcription
-
Jayanthi, S., Nilgiriwala, K. S., and Del Vecchio, D. (2013). Retroactivity controls the temporal dynamics of gene transcription. ACS Synth. Biol. 2, 431-441. doi:10.1021/sb300098w.
-
(2013)
ACS Synth. Biol
, vol.2
, pp. 431-441
-
-
Jayanthi, S.1
Nilgiriwala, K.S.2
Del Vecchio, D.3
-
38
-
-
80054039227
-
Load-induced modulation of signal transduction networks
-
Jiang, P., Ventura, A. C., Sontag, E. D., Merajver, S. D., Ninfa, A. J., and Del Vecchio, D. (2011). Load-induced modulation of signal transduction networks. Sci. Signal. 4, 194. doi:10.1126/scisignal.2002152.
-
(2011)
Sci. Signal
, vol.4
, pp. 194
-
-
Jiang, P.1
Ventura, A.C.2
Sontag, E.D.3
Merajver, S.D.4
Ninfa, A.J.5
Del Vecchio, D.6
-
39
-
-
1942452749
-
Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae
-
Kellis, M., Birren, B. W., and Lander, E. S. (2004). Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae. Nature 428, 617-624. doi:10.1038/nature02424.
-
(2004)
Nature
, vol.428
, pp. 617-624
-
-
Kellis, M.1
Birren, B.W.2
Lander, E.S.3
-
40
-
-
77952903562
-
Signalling ballet in space and time
-
Kholodenko, B. N., Hancock, J. F., and Kolch, W. (2010). Signalling ballet in space and time. Nat. Rev. Mol. Cell Biol. 11, 414-426. doi:10.1038/nrm2901.
-
(2010)
Nat. Rev. Mol. Cell Biol
, vol.11
, pp. 414-426
-
-
Kholodenko, B.N.1
Hancock, J.F.2
Kolch, W.3
-
41
-
-
0036789922
-
Untangling the wires: a strategy to trace functional interactions in signaling and gene networks
-
Kholodenko, B. N., Kiyatkin, A., Bruggeman, F. J., Sontag, E., Westerhoff, H. V., and Hoek, J. B. (2002). Untangling the wires: a strategy to trace functional interactions in signaling and gene networks. Proc. Natl. Acad. Sci. U.S.A. 99, 12841-12846. doi:10.1073/pnas.192442699.
-
(2002)
Proc. Natl. Acad. Sci. U.S.A
, vol.99
, pp. 12841-12846
-
-
Kholodenko, B.N.1
Kiyatkin, A.2
Bruggeman, F.J.3
Sontag, E.4
Westerhoff, H.V.5
Hoek, J.B.6
-
42
-
-
84859331276
-
'Toward modularity in synthetic biology: design patterns and fan-out,'
-
eds H. Koeppl, G. Setti, M. di Bernardo, and D. Densmore (New York, NY: Springer)
-
Kim, K., Chandran, D., and Sauro, H. (2011). "Toward modularity in synthetic biology: design patterns and fan-out," in Design and Analysis of Biomolecular Circuits, eds H. Koeppl, G. Setti, M. di Bernardo, and D. Densmore (New York, NY: Springer), 117-138.
-
(2011)
Design and Analysis of Biomolecular Circuits
, pp. 117-138
-
-
Kim, K.1
Chandran, D.2
Sauro, H.3
-
43
-
-
78650077524
-
Fan-out in gene regulatory networks
-
Kim, K. H., and Sauro, H. M. (2010). Fan-out in gene regulatory networks. J. Biol. Eng. 4, 16. doi:10.1186/1754-1611-4-16.
-
(2010)
J. Biol. Eng
, vol.4
, pp. 16
-
-
Kim, K.H.1
Sauro, H.M.2
-
44
-
-
79953903095
-
Measuring retroactivity from noise in gene regulatory networks
-
Kim, K. H., and Sauro, H. M. (2011). Measuring retroactivity from noise in gene regulatory networks. Biophys. J. 100, 1167-1177. doi:10.1016/j.bpj.2010.12.3737.
-
(2011)
Biophys. J
, vol.100
, pp. 1167-1177
-
-
Kim, K.H.1
Sauro, H.M.2
-
45
-
-
0034625005
-
Cell signaling pathways as control modules: complexity for simplicity?
-
Lauffenburger, D. A. (2000). Cell signaling pathways as control modules: complexity for simplicity? Proc. Natl. Acad. Sci. U.S.A. 97, 5031-5033. doi:10.1073/pnas.97.10.5031.
-
(2000)
Proc. Natl. Acad. Sci. U.S.A
, vol.97
, pp. 5031-5033
-
-
Lauffenburger, D.A.1
-
46
-
-
84859206826
-
A regulatory role for repeated decoy transcription factor binding sites in target gene expression
-
Lee, T.-H., and Maheshri, N. (2012). A regulatory role for repeated decoy transcription factor binding sites in target gene expression. Mol. Syst. Biol. 8, 1-11. doi:10.1038/msb.2012.7.
-
(2012)
Mol. Syst. Biol
, vol.8
, pp. 1-11
-
-
Lee, T.-H.1
Maheshri, N.2
-
47
-
-
79955879494
-
Controllability of complex networks
-
Liu, Y.-Y., Slotine, J.-J., and Barabási, A.-L. (2011). Controllability of complex networks. Nature 473, 167-173. doi:10.1038/nature10011.
-
(2011)
Nature
, vol.473
, pp. 167-173
-
-
Liu, Y.-Y.1
Slotine, J.-J.2
Barabási, A.-L.3
-
48
-
-
79959844663
-
The emergence of modularity in biological systems
-
Lorenz, D. M., Jeng, A., and Deem, M. W. (2011). The emergence of modularity in biological systems. Phys. Life Rev. 8, 129-160. doi:10.1016/j.plrev.2011.02.003.
-
(2011)
Phys. Life Rev
, vol.8
, pp. 129-160
-
-
Lorenz, D.M.1
Jeng, A.2
Deem, M.W.3
-
49
-
-
4644326931
-
Genomic analysis of regulatory network dynamics reveals large topological changes
-
Luscombe, N. M., Babu, M. M., Yu, H., Snyder, M., Teichmann, S. A., and Gerstein, M. (2004). Genomic analysis of regulatory network dynamics reveals large topological changes. Nature 431, 308-312. doi:10.1038/nature02782.
-
(2004)
Nature
, vol.431
, pp. 308-312
-
-
Luscombe, N.M.1
Babu, M.M.2
Yu, H.3
Snyder, M.4
Teichmann, S.A.5
Gerstein, M.6
-
50
-
-
0031443367
-
Transcriptional squelching re-examined
-
Natesan, S., Rivera, V. M., Molinari, E., and Gilman, M. (1997). Transcriptional squelching re-examined. Nature 390, 349-350. doi:10.1038/37019.
-
(1997)
Nature
, vol.390
, pp. 349-350
-
-
Natesan, S.1
Rivera, V.M.2
Molinari, E.3
Gilman, M.4
-
51
-
-
79959681589
-
Long signaling cascades tend to attenuate retroactivity
-
Ossareh, H. R., Ventura, A. C., Merajver, S. D., and Del Vecchio, D. (2011). Long signaling cascades tend to attenuate retroactivity. Biophys. J. 100, 1617-1626. doi:10.1016/j.bpj.2011.02.014.
-
(2011)
Biophys. J
, vol.100
, pp. 1617-1626
-
-
Ossareh, H.R.1
Ventura, A.C.2
Merajver, S.D.3
Del Vecchio, D.4
-
52
-
-
0033827363
-
Dissociability, modularity, evolvability
-
Raff, E. C., and Raff, R. A. (2000). Dissociability, modularity, evolvability. Evol. Dev. 2, 235-237. doi:10.1046/j.1525-142x.2000.00069.x.
-
(2000)
Evol. Dev
, vol.2
, pp. 235-237
-
-
Raff, E.C.1
Raff, R.A.2
-
53
-
-
79955887164
-
Morphogenesis of insect-induced plant galls: facts and questions
-
Raman, A. (2011). Morphogenesis of insect-induced plant galls: facts and questions. Flora 206, 517-533. doi:10.1016/j.flora.2010.08.004.
-
(2011)
Flora
, vol.206
, pp. 517-533
-
-
Raman, A.1
-
55
-
-
79951623340
-
-
Singapore: World Scientific
-
Rhodes, J. (2010). Applications of Automata Theory and Algebra: Via the Mathematical Theory of Complexity to Biology, Physics, Phycology, Philosophy, and Games. Singapore: World Scientific.
-
(2010)
Applications of Automata Theory and Algebra: Via the Mathematical Theory of Complexity to Biology, Physics, Phycology, Philosophy, and Games
-
-
Rhodes, J.1
-
56
-
-
49549114493
-
Automatic decomposition of kinetic models of signaling networks minimizing the retroactivity among modules
-
Saez-Rodriguez, J., Gayer, S., Ginkel, M., and Gilles, E. D. (2008). Automatic decomposition of kinetic models of signaling networks minimizing the retroactivity among modules. Bioinformatics 24, i213-i219. doi:10.1093/bioinformatics/btn289.
-
(2008)
Bioinformatics
, vol.24
, pp. i213-i219
-
-
Saez-Rodriguez, J.1
Gayer, S.2
Ginkel, M.3
Gilles, E.D.4
-
57
-
-
3442878412
-
Modular analysis of signal transduction networks
-
Saez-Rodriguez, J., Kremling, A., Conzelmann, H., Bettenbrock, K., and Gilles, E. D. (2004). Modular analysis of signal transduction networks. IEEE Contr. Syst. Mag. 24, 35-52. doi:10.1109/MCS.2004.1316652.
-
(2004)
IEEE Contr. Syst. Mag
, vol.24
, pp. 35-52
-
-
Saez-Rodriguez, J.1
Kremling, A.2
Conzelmann, H.3
Bettenbrock, K.4
Gilles, E.D.5
-
58
-
-
15744394108
-
Dissecting the puzzle of life: modularization of signal transduction networks
-
Saez-Rodriguez, J., Kremling, A., and Gilles, E. D. (2005). Dissecting the puzzle of life: modularization of signal transduction networks. Comput. Chem. Eng. 29, 619-629. doi:10.1016/j.compchemeng.2004.08.035.
-
(2005)
Comput. Chem. Eng
, vol.29
, pp. 619-629
-
-
Saez-Rodriguez, J.1
Kremling, A.2
Gilles, E.D.3
-
59
-
-
11244297914
-
Modular epistasis in yeast metabolism
-
Segrè, D., DeLuna, A., Church, G. M., and Kishony, R. (2005). Modular epistasis in yeast metabolism. Nat. Genet. 37, 77-83. doi:10.1038/ng1489.
-
(2005)
Nat. Genet
, vol.37
, pp. 77-83
-
-
Segrè, D.1
DeLuna, A.2
Church, G.M.3
Kishony, R.4
-
60
-
-
79953152136
-
'Remarks on structural identification, modularity, and retroactivity,'
-
(Atlanta, GA: IEEE)
-
Sontag, E. D. (2010). "Remarks on structural identification, modularity, and retroactivity," in Proceedings of the 49th IEEE Conference on Decision and Control (Atlanta, GA: IEEE), 3373-3378. doi:10.1109/CDC.2010.5717595.
-
(2010)
Proceedings of the 49th IEEE Conference on Decision and Control
, pp. 3373-3378
-
-
Sontag, E.D.1
-
61
-
-
77952254077
-
A general lack of compensation for gene dosage in yeast
-
Springer, M., Weissman, J. S., and Kirschner, M. W. (2010). A general lack of compensation for gene dosage in yeast. Mol. Syst. Biol. 6, 368. doi:10.1038/msb.2010.19.
-
(2010)
Mol. Syst. Biol
, vol.6
, pp. 368
-
-
Springer, M.1
Weissman, J.S.2
Kirschner, M.W.3
-
62
-
-
63549128842
-
Dynamics of the interlocked positive feedback loops explaining the robust epigenetic switching in Candida albicans
-
Sriram, K., Soliman, S., and Fages, F. (2009). Dynamics of the interlocked positive feedback loops explaining the robust epigenetic switching in Candida albicans. J. Theor. Biol. 258, 71-88. doi:10.1016/j.jtbi.2009.01.008.
-
(2009)
J. Theor. Biol
, vol.258
, pp. 71-88
-
-
Sriram, K.1
Soliman, S.2
Fages, F.3
-
63
-
-
77954449183
-
Gall-inducing Pachypsylla celtidis (psyllidae) infiltrate hackberry trees with high concentrations of phytohormones
-
Straka, J. R., Hayward, A. R., and Neil Emery, R. J. (2010). Gall-inducing Pachypsylla celtidis (psyllidae) infiltrate hackberry trees with high concentrations of phytohormones. J. Plant Interact. 5, 197-203. doi:10.1080/17429145.2010.484552.
-
(2010)
J. Plant Interact
, vol.5
, pp. 197-203
-
-
Straka, J.R.1
Hayward, A.R.2
Neil Emery, R.J.3
-
64
-
-
80055085380
-
Evolution of networks for body plan patterning; interplay of modularity, robustness and evolvability
-
Ten Tusscher, K. H., and Hogeweg, P. (2011). Evolution of networks for body plan patterning; interplay of modularity, robustness and evolvability. PLoS Comput. Biol. 7:e1002208. doi:10.1371/journal.pcbi.1002208.
-
(2011)
PLoS Comput. Biol
, vol.7
-
-
Ten Tusscher, K.H.1
Hogeweg, P.2
-
65
-
-
0036796327
-
Identification and confirmation of a module of coexpressed genes
-
Thompson, H. G. R., Harris, J. W., Wold, B. J., Quake, S. R., and Brody, J. P. (2002). Identification and confirmation of a module of coexpressed genes. Genome Res. 12, 1517-1522. doi:10.1101/gr.418402.
-
(2002)
Genome Res
, vol.12
, pp. 1517-1522
-
-
Thompson, H.G.R.1
Harris, J.W.2
Wold, B.J.3
Quake, S.R.4
Brody, J.P.5
-
66
-
-
84906078611
-
Phytohormone dynamics associated with gall insects, and their potential role in the evolution of the gall-inducing habit
-
Tooker, J. F., and Helms, A. M. (2014). Phytohormone dynamics associated with gall insects, and their potential role in the evolution of the gall-inducing habit. J. Chem. Ecol. 40, 742-753. doi:10.1007/s10886-014-0457-6.
-
(2014)
J. Chem. Ecol
, vol.40
, pp. 742-753
-
-
Tooker, J.F.1
Helms, A.M.2
-
67
-
-
77953387357
-
Signaling properties of a covalent modification cycle are altered by a downstream target
-
Ventura, A. C., Jiang, P., Van Wassenhove, L., Del Vecchio, D., Merajver, S. D., and Ninfa, A. J. (2010). Signaling properties of a covalent modification cycle are altered by a downstream target. Proc. Natl. Acad. Sci. U.S.A. 107, 10032-10037. doi:10.1073/pnas.0913815107.
-
(2010)
Proc. Natl. Acad. Sci. U.S.A
, vol.107
, pp. 10032-10037
-
-
Ventura, A.C.1
Jiang, P.2
Van Wassenhove, L.3
Del Vecchio, D.4
Merajver, S.D.5
Ninfa, A.J.6
-
68
-
-
41849098863
-
A hidden feedback in signaling cascades is revealed
-
Ventura, A. C., Sepulchre, J.-A., and Merajver, S. D. (2008). A hidden feedback in signaling cascades is revealed. PLoS Comput. Biol. 4:e1000041. doi:10.1371/journal.pcbi.1000041.
-
(2008)
PLoS Comput. Biol
, vol.4
-
-
Ventura, A.C.1
Sepulchre, J.-A.2
Merajver, S.D.3
-
69
-
-
36248936497
-
The road to modularity
-
Wagner, G. P., Pavlicev, M., and Cheverud, J. M. (2007). The road to modularity. Nat. Rev. Genet. 8, 921-931. doi:10.1038/nrg2267.
-
(2007)
Nat. Rev. Genet
, vol.8
, pp. 921-931
-
-
Wagner, G.P.1
Pavlicev, M.2
Cheverud, J.M.3
-
70
-
-
84866434021
-
Phytohormones and willow gall induction by a gall-inducing sawfly
-
Yamaguchi, H., Tanaka, H., Hasegawa, M., Tokuda, M., Asami, T., and Suzuki, Y. (2012). Phytohormones and willow gall induction by a gall-inducing sawfly. New Phytol. 196, 586-595. doi:10.1111/j.1469-8137.2012.04264.x.
-
(2012)
New Phytol
, vol.196
, pp. 586-595
-
-
Yamaguchi, H.1
Tanaka, H.2
Hasegawa, M.3
Tokuda, M.4
Asami, T.5
Suzuki, Y.6
|