-
1
-
-
20244387299
-
Identification of Flt3+ lympho-myeloid stem cells lacking erythro-megakaryocytic potential a revised road map for adult blood lineage commitment
-
Adolfsson J, Mansson R, Buza-Vidas N, Hultquist A, Liuba K, Jensen CT, Bryder D, Yang L, Borge OJ, Thoren LA, Anderson K, Sitnicka E, Sasaki Y, Sigvardsson M, Jacobsen SE (2005) Identification of Flt3+ lympho-myeloid stem cells lacking erythro-megakaryocytic potential a revised road map for adult blood lineage commitment. Cell 121:295-306
-
(2005)
Cell
, vol.121
, pp. 295-306
-
-
Adolfsson, J.1
Mansson, R.2
Buza-Vidas, N.3
Hultquist, A.4
Liuba, K.5
Jensen, C.T.6
Bryder, D.7
Yang, L.8
Borge, O.J.9
Thoren, L.A.10
Anderson, K.11
Sitnicka, E.12
Sasaki, Y.13
Sigvardsson, M.14
Jacobsen, S.E.15
-
2
-
-
33748798478
-
Graph-based methods for analysing networks in cell biology
-
Aittokallio T, Schwikowski B (2006) Graph-based methods for analysing networks in cell biology. Brief Bioinform 7:243-55
-
(2006)
Brief Bioinform
, vol.7
, pp. 243-255
-
-
Aittokallio, T.1
Schwikowski, B.2
-
3
-
-
27944493925
-
Scale-free networks in cell biology
-
Albert R (2005) Scale-free networks in cell biology. J Cell Sci 118:4947-57
-
(2005)
J Cell Sci
, vol.118
, pp. 4947-4957
-
-
Albert, R.1
-
4
-
-
0037686112
-
The topology of the regulatory interactions predicts the expression pattern of the segment polarity genes in Drosophila melanogaster
-
Albert R, Othmer HG (2003) The topology of the regulatory interactions predicts the expression pattern of the segment polarity genes in Drosophila melanogaster. J Theor Biol 223:1-18
-
(2003)
J Theor Biol
, vol.223
, pp. 1-18
-
-
Albert, R.1
Othmer, H.G.2
-
5
-
-
0034721164
-
Error and attack tolerance of complex networks
-
Albert R, Jeong H, Barabasi AL (2000) Error and attack tolerance of complex networks. Nature 406:378-82
-
(2000)
Nature
, vol.406
, pp. 378-382
-
-
Albert, R.1
Jeong, H.2
Barabasi, A.L.3
-
6
-
-
0042808605
-
A natural class of robust networks
-
Aldana M, Cluzel P (2003) A natural class of robust networks. Proc Natl Acad Sci USA 100:8710-4
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 8710-8714
-
-
Aldana, M.1
Cluzel, P.2
-
8
-
-
0141811692
-
Boolean dynamics with random couplings
-
Kaplan E, Marsden JE, Sreenivasan KR (eds), Springer, New York
-
Aldana M, Coppersmith S, Kadanoff LP (2003) Boolean dynamics with random couplings. In: Kaplan E, Marsden JE, Sreenivasan KR (eds) Perspectives and problems in nonlinear science. A celebratory volume in honor of Lawrence Sirovich. Springer, New York
-
(2003)
Perspectives and Problems in Nonlinear Science. A Celebratory Volume in Honor of Lawrence Sirovich
-
-
Aldana, M.1
Coppersmith, S.2
Kadanoff, L.P.3
-
9
-
-
0141484562
-
Biological networks: The tinkerer as an engineer
-
Alon U (2003) Biological networks: the tinkerer as an engineer. Science 301:1866-7
-
(2003)
Science
, vol.301
, pp. 1866-1867
-
-
Alon, U.1
-
11
-
-
34247953814
-
More is different
-
Anderson PW (1972) More is different. Science 177:393-396
-
(1972)
Science
, vol.177
, pp. 393-396
-
-
Anderson, P.W.1
-
12
-
-
1242274449
-
Detection of multi-stability, bifurcations, and hysteresis in a large class of biological positive-feedback systems
-
Angeli D, Ferrell JE Jr., Sontag ED (2004) Detection of multi-stability, bifurcations, and hysteresis in a large class of biological positive-feedback systems. Proc Natl Acad Sci USA 101: 1822-1827
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 1822-1827
-
-
Angeli, D.1
Ferrell, J.E.2
Sontag, E.D.3
-
13
-
-
5444263735
-
Epigenetic aspects of differentiation
-
Arney KL, Fisher AG (2004) Epigenetic aspects of differentiation. J Cell Sci 117:4355-63
-
(2004)
J Cell Sci
, vol.117
, pp. 4355-4363
-
-
Arney, K.L.1
Fisher, A.G.2
-
14
-
-
4344715809
-
Comment on Network motifs: Simple building blocks of complex networks and Superfamilies of evolved and designed networks
-
author reply 1107
-
Artzy-Randrup Y, Fleishman SJ, Ben-Tal N, Stone L (2004) Comment on Network motifs: simple building blocks of complex networks and Superfamilies of evolved and designed networks. Science 305:1107; author reply 1107
-
(2004)
Science
, vol.305
, pp. 1107
-
-
Artzy-Randrup, Y.1
Fleishman, S.J.2
Ben-Tal, N.3
Stone, L.4
-
15
-
-
0036950844
-
Integrating historical and mechanistic biology enhances the study of adaptation
-
Autumn K, Ryan MJ, Wake DB (2002) Integrating historical and mechanistic biology enhances the study of adaptation. Q Rev Biol 77:383-408
-
(2002)
Q Rev Biol
, vol.77
, pp. 383-408
-
-
Autumn, K.1
Ryan, M.J.2
Wake, D.B.3
-
16
-
-
2942606066
-
Structure and evolution of transcriptional regulatory networks
-
Babu MM, Luscombe NM, Aravind L, Gerstein M, Teichmann SA (2004) Structure and evolution of transcriptional regulatory networks. Curr Opin Struct Biol 14:283-91
-
(2004)
Curr Opin Struct Biol
, vol.14
, pp. 283-291
-
-
Babu, M.M.1
Luscombe, N.M.2
Aravind, L.3
Gerstein, M.4
Teichmann, S.A.5
-
17
-
-
0030574422
-
Counting and classifying attractors in high dimensional dynamical systems
-
Bagley RJ, Glass L (1996) Counting and classifying attractors in high dimensional dynamical systems. J Theor Biol 183:269-84
-
(1996)
J Theor Biol
, vol.183
, pp. 269-284
-
-
Bagley, R.J.1
Glass, L.2
-
18
-
-
41549151160
-
The information coded in the yeast response elements accounts for most of the topological properties of its transcriptional regulation network
-
Balcan D, Kabakcioglu A, Mungan M, Erzan A (2007) The information coded in the yeast response elements accounts for most of the topological properties of its transcriptional regulation network. PLoS ONE 2:e501
-
(2007)
PLoS ONE
, vol.2
, pp. e501
-
-
Balcan, D.1
Kabakcioglu, A.2
Mungan, M.3
Erzan, A.4
-
19
-
-
49649117268
-
Critical dynamics in genetic regulatory networks: Examples from four kingdoms
-
Balleza E, Alvarez-Buylla ER, Chaos A, Kauffman A, Shmulevich I, Aldana M (2008) Critical dynamics in genetic regulatory networks: examples from four kingdoms. PLoS One 3:e2456
-
(2008)
PLoS One
, vol.3
, pp. e2456
-
-
Balleza, E.1
Alvarez-Buylla, E.R.2
Chaos, A.3
Kauffman, A.4
Shmulevich, I.5
Aldana, M.6
-
20
-
-
0038483826
-
Emergence of scaling in random networks
-
Barabasi AL, Albert R (1999) Emergence of scaling in random networks. Science 286:509-12
-
(1999)
Science
, vol.286
, pp. 509-512
-
-
Barabasi, A.L.1
Albert, R.2
-
21
-
-
0742305866
-
Network biology: Understanding the cell's functional organization
-
Barabasi AL, Oltvai ZN (2004) Network biology: understanding the cell's functional organization. Nat Rev Genet 5: 101-113
-
(2004)
Nat Rev Genet
, vol.5
, pp. 101-113
-
-
Barabasi, A.L.1
Oltvai, Z.N.2
-
22
-
-
17144456808
-
Positive feedback in eukaryotic gene networks: Cell differentiation by graded to binary response conversion
-
Becskei A, Seraphin B, Serrano L (2001) Positive feedback in eukaryotic gene networks: cell differentiation by graded to binary response conversion. EMBO J 20:2528-2535
-
(2001)
EMBO J
, vol.20
, pp. 2528-2535
-
-
Becskei, A.1
Seraphin, B.2
Serrano, L.3
-
23
-
-
12444301754
-
Structure and evolution of protein interaction networks: A statistical model for link dynamics and gene duplications
-
Berg J, Lassig M, Wagner A
-
Berg J, Lassig M, Wagner A (2004) Structure and evolution of protein interaction networks: a statistical model for link dynamics and gene duplications. BMC Evol Biol 4:51
-
(2004)
BMC Evol Biol
, vol.4
, pp. 51
-
-
-
24
-
-
19344374050
-
Similarities and differences in genome-wide expression data of six organisms
-
Bergmann S, Ihmels J, Barkai N (2004) Similarities and differences in genome-wide expression data of six organisms. PLoS Biol 2:E9
-
(2004)
PLoS Biol
, vol.2
, pp. E9
-
-
Bergmann, S.1
Ihmels, J.2
Barkai, N.3
-
25
-
-
33646070846
-
A bivalent chromatin structure marks key developmental genes in embryonic stem cells
-
Bernstein BE, Mikkelsen TS, Xie X, Kamal M, Huebert DJ, Cuff J, Fry B, Meissner A, Wernig M, Plath K, Jaenisch R, Wagschal A, Feil R, Schreiber SL, Lander ES (2006) A bivalent chromatin structure marks key developmental genes in embryonic stem cells. Cell 125:315-26
-
(2006)
Cell
, vol.125
, pp. 315-326
-
-
Bernstein, B.E.1
Mikkelsen, T.S.2
Xie, X.3
Kamal, M.4
Huebert, D.J.5
Cuff, J.6
Fry, B.7
Meissner, A.8
Wernig, M.9
Plath, K.10
Jaenisch, R.11
Wagschal, A.12
Feil, R.13
Schreiber, S.L.14
Lander, E.S.15
-
26
-
-
34249337761
-
Perceptions of epigenetics
-
Bird A (2007) Perceptions of epigenetics. Nature 447:396-8
-
(2007)
Nature
, vol.447
, pp. 396-398
-
-
Bird, A.1
-
27
-
-
2942624159
-
Apparent dependence of protein evolutionary rate on number of interactions is linked to biases in protein-protein interactions data sets
-
Bloom JD, Adami C (2003) Apparent dependence of protein evolutionary rate on number of interactions is linked to biases in protein-protein interactions data sets. BMC Evol Biol 3:21
-
(2003)
BMC Evol Biol
, vol.3
, pp. 21
-
-
Bloom, J.D.1
Adami, C.2
-
28
-
-
2942683220
-
Evolutionary rate depends on number of protein-protein interactions independently of gene expression level: Response
-
Bloom JD, Adami C (2004) Evolutionary rate depends on number of protein-protein interactions independently of gene expression level: response. BMC Evol Biol 4:14
-
(2004)
BMC Evol Biol
, vol.4
, pp. 14
-
-
Bloom, J.D.1
Adami, C.2
-
29
-
-
2942544498
-
Protein interaction networks from yeast to human
-
Bork P, Jensen LJ, von Mering C, Ramani AK, Lee I, Marcotte EM (2004) Protein interaction networks from yeast to human. Curr Opin Struct Biol 14:292-9
-
(2004)
Curr Opin Struct Biol
, vol.14
, pp. 292-299
-
-
Bork, P.1
Jensen, L.J.2
Von Mering, C.3
Ramani, A.K.4
Lee, I.5
Marcotte, E.M.6
-
30
-
-
27144450537
-
Systems biology. Less is more in modeling large genetic networks
-
Bornholdt S (2005) Systems biology. Less is more in modeling large genetic networks. Science 310:449-51
-
(2005)
Science
, vol.310
, pp. 449-451
-
-
Bornholdt, S.1
-
31
-
-
0034717395
-
Topological evolution of dynamical networks: Global criticality from local dynamics
-
Bornholdt S, Rohlf T (2000) Topological evolution of dynamical networks: global criticality from local dynamics. Phys Rev Lett 84:6114-7
-
(2000)
Phys Rev Lett
, vol.84
, pp. 6114-6117
-
-
Bornholdt, S.1
Rohlf, T.2
-
32
-
-
25144525014
-
Core transcrip-tional regulatory circuitry in human embryonic stem cells
-
Boyer LA, Lee TI, Cole MF, Johnstone SE, Levine SS, Zucker JP, Guenther MG, Kumar RM, Murray HL, Jenner RG, Gifford DK, Melton DA, Jaenisch R, Young RA (2005) Core transcrip-tional regulatory circuitry in human embryonic stem cells. Cell 122:947-56
-
(2005)
Cell
, vol.122
, pp. 947-956
-
-
Boyer, L.A.1
Lee, T.I.2
Cole, M.F.3
Johnstone, S.E.4
Levine, S.S.5
Zucker, J.P.6
Guenther, M.G.7
Kumar, R.M.8
Murray, H.L.9
Jenner, R.G.10
Gifford, D.K.11
Melton, D.A.12
Jaenisch, R.13
Young, R.A.14
-
34
-
-
33748557777
-
The statistical mechanics of complex signaling networks: Nerve growth factor signaling
-
Brown KS, Hill CC, Calero GA, Myers CR, Lee KH, Sethna JP, Cerione RA (2004) The statistical mechanics of complex signaling networks: nerve growth factor signaling. Phys Biol 1: 184-195
-
(2004)
Phys Biol
, vol.1
, pp. 184-195
-
-
Brown, K.S.1
Hill, C.C.2
Calero, G.A.3
Myers, C.R.4
Lee, K.H.5
Sethna, J.P.6
Cerione, R.A.7
-
35
-
-
33746829957
-
DNA microarray technologies for measuring protein-DNA interactions
-
Bulyk ML (2006) DNA microarray technologies for measuring protein-DNA interactions. Curr Opin Biotechnol 17:422-30
-
(2006)
Curr Opin Biotechnol
, vol.17
, pp. 422-430
-
-
Bulyk, M.L.1
-
36
-
-
0035474697
-
Are randomly grown graphs really random?
-
Callaway DS, Hopcroft JE, Kleinberg JM, Newman ME, Stro-gatz SH (2001) Are randomly grown graphs really random? Phys Rev E Stat Nonlin Soft Matter Phys 64:041902
-
(2001)
Phys Rev e Stat Nonlin Soft Matter Phys
, vol.64
, pp. 041902
-
-
Callaway, D.S.1
Hopcroft, J.E.2
Kleinberg, J.M.3
Newman, M.E.4
Stro-Gatz, S.H.5
-
37
-
-
44349162752
-
Transcriptome-wide noise controls lineage choice in mammalian progenitor cells
-
Chang HH, Hemberg M, Barahona M, Ingber DE, Huang S (2008) Transcriptome-wide noise controls lineage choice in mammalian progenitor cells. Nature 453:544-547
-
(2008)
Nature
, vol.453
, pp. 544-547
-
-
Chang, H.H.1
Hemberg, M.2
Barahona, M.3
Ingber, D.E.4
Huang, S.5
-
38
-
-
33645097646
-
Multistable and multistep dynamics in neutrophil differentiation
-
Chang HH, Oh PY, Ingber DE, Huang S (2006) Multistable and multistep dynamics in neutrophil differentiation. BMC Cell Biol 7:11
-
(2006)
BMC Cell Biol
, vol.7
, pp. 11
-
-
Chang, H.H.1
Oh, P.Y.2
Ingber, D.E.3
Huang, S.4
-
39
-
-
25444464334
-
Quantitative inference of dynamic regulatory pathways via microarray data
-
Chang WC, Li CW, Chen BS (2005) Quantitative inference of dynamic regulatory pathways via microarray data. BMC Bioin-formatics 6:44
-
(2005)
BMC Bioin-formatics
, vol.6
, pp. 44
-
-
Chang, W.C.1
Li, C.W.2
Chen, B.S.3
-
40
-
-
33746618913
-
Methods of robustness analysis for Boolean models of gene control networks
-
Chaves M, Sontag ED, Albert R (2006) Methods of robustness analysis for Boolean models of gene control networks. Syst Biol (Stevenage) 153:154-67
-
(2006)
Syst Biol (Stevenage)
, vol.153
, pp. 154-167
-
-
Chaves, M.1
Sontag, E.D.2
Albert, R.3
-
41
-
-
33846283385
-
The evolution of gene regulation by transcription factors and microRNAs
-
Chen K, Rajewsky N (2007) The evolution of gene regulation by transcription factors and microRNAs. Nat Rev Genet 8: 93-103
-
(2007)
Nat Rev Genet
, vol.8
, pp. 93-103
-
-
Chen, K.1
Rajewsky, N.2
-
42
-
-
20844452570
-
A stochastic differential equation model for quantifying tran-scriptional regulatory network in Saccharomyces cerevisiae
-
Chen KC, Wang TY, Tseng HH, Huang CY, Kao CY (2005) A stochastic differential equation model for quantifying tran-scriptional regulatory network in Saccharomyces cerevisiae. Bioinformatics 21:2883-90
-
(2005)
Bioinformatics
, vol.21
, pp. 2883-2890
-
-
Chen, K.C.1
Wang, T.Y.2
Tseng, H.H.3
Huang, C.Y.4
Kao, C.Y.5
-
43
-
-
33749350211
-
Transcriptional dynamics of the embryonic stem cell switch
-
Chickarmane V, Troein C, Nuber UA, Sauro HM, Peterson C (2006) Transcriptional dynamics of the embryonic stem cell switch. PLoS Comput Biol 2:e123
-
(2006)
PLoS Comput Biol
, vol.2
, pp. e123
-
-
Chickarmane, V.1
Troein, C.2
Nuber, U.A.3
Sauro, H.M.4
Peterson, C.5
-
44
-
-
0035895513
-
Gene number. What if there are only 30, 000 human genes?
-
Claverie JM (2001) Gene number. What if there are only 30, 000 human genes? Science 291:1255-7
-
(2001)
Science
, vol.291
, pp. 1255-1257
-
-
Claverie, J.M.1
-
45
-
-
0023605430
-
The HL-60 promyelocytic leukemia cell line: Proliferation, differentiation, and cellular oncogene expression
-
Collins SJ (1987) The HL-60 promyelocytic leukemia cell line: proliferation, differentiation, and cellular oncogene expression. Blood 70:1233-1244
-
(1987)
Blood
, vol.70
, pp. 1233-1244
-
-
Collins, S.J.1
-
46
-
-
33748773071
-
Feed-forward loop circuits as a side effect of genome evolution
-
Cordero OX, Hogeweg P (2006) Feed-forward loop circuits as a side effect of genome evolution. Mol Biol Evol 23:1931-6
-
(2006)
Mol Biol Evol
, vol.23
, pp. 1931-1936
-
-
Cordero, O.X.1
Hogeweg, P.2
-
47
-
-
0030838280
-
The lineage commitment of haemopoietic progenitor cells
-
Cross MA, Enver T (1997) The lineage commitment of haemopoietic progenitor cells. Curr Opin Genet Dev 7: 609-613
-
(1997)
Curr Opin Genet Dev
, vol.7
, pp. 609-613
-
-
Cross, M.A.1
Enver, T.2
-
48
-
-
33748171960
-
The c-Myc target gene network
-
Dang CV, O'Donnell KA, Zeller KI, Nguyen T, Osthus RC, Li F (2006) The c-Myc target gene network. Semin Cancer Biol 16:253-64
-
(2006)
Semin Cancer Biol
, vol.16
, pp. 253-264
-
-
Dang, C.V.1
O'Donnell, K.A.2
Zeller, K.I.3
Nguyen, T.4
Osthus, R.C.5
Li, F.6
-
49
-
-
45849093636
-
Boolean network model predicts cell cycle sequence of fission yeast
-
Davidich MI, Bornholdt S (2008) Boolean network model predicts cell cycle sequence of fission yeast. PLoS ONE 3:e1672
-
(2008)
PLoS ONE
, vol.3
, pp. e1672
-
-
Davidich, M.I.1
Bornholdt, S.2
-
50
-
-
32444446240
-
Gene regulatory networks and the evolution of animal body plans
-
Davidson EH, Erwin DH (2006) Gene regulatory networks and the evolution of animal body plans. Science 311:796-800
-
(2006)
Science
, vol.311
, pp. 796-800
-
-
Davidson, E.H.1
Erwin, D.H.2
-
51
-
-
18144429118
-
MyoD targets chromatin remodeling complexes to the myogenin locus prior to forming a stable DNA-bound complex
-
de la Serna IL, Ohkawa Y, Berkes CA, Bergstrom DA, Dacwag CS, Tapscott SJ, Imbalzano AN (2005) MyoD targets chromatin remodeling complexes to the myogenin locus prior to forming a stable DNA-bound complex. Mol Cell Biol 25:3997-4009
-
(2005)
Mol Cell Biol
, vol.25
, pp. 3997-4009
-
-
De La Serna, I.L.1
Ohkawa, Y.2
Berkes, C.A.3
Bergstrom, D.A.4
Dacwag, C.S.5
Tapscott, S.J.6
Imbalzano, A.N.7
-
52
-
-
0036580169
-
Protein interactions: Two methods for assessment of the reliability of high throughput observations
-
Deane CM, Salwinski L, Xenarios I, Eisenberg D (2002) Protein interactions: two methods for assessment of the reliability of high throughput observations. Mol Cell Proteomics 1:349-56
-
(2002)
Mol Cell Proteomics
, vol.1
, pp. 349-356
-
-
Deane, C.M.1
Salwinski, L.2
Xenarios, I.3
Eisenberg, D.4
-
54
-
-
33744972290
-
A gene-centered C. elegans protein-DNA interaction network
-
Deplancke B, Mukhopadhyay A, Ao W, Elewa AM, Grove CA, Martinez NJ, Sequerra R, Doucette-Stamm L, Reece-Hoyes JS, Hope IA, Tissenbaum HA, Mango SE, Walhout AJ (2006) A gene-centered C. elegans protein-DNA interaction network. Cell 125:1193-205
-
(2006)
Cell
, vol.125
, pp. 1193-1205
-
-
Deplancke, B.1
Mukhopadhyay, A.2
Ao, W.3
Elewa, A.M.4
Grove, C.A.5
Martinez, N.J.6
Sequerra, R.7
Doucette-Stamm, L.8
Reece-Hoyes, J.S.9
Hope, I.A.10
Tissenbaum, H.A.11
Mango, S.E.12
Walhout, A.J.13
-
55
-
-
84956252965
-
Random networks of automata: A simple annealed approximation
-
Derrida B, Pomeau Y (1986) Random networks of automata: a simple annealed approximation. Europhys Lett 1:45-49
-
(1986)
Europhys Lett
, vol.1
, pp. 45-49
-
-
Derrida, B.1
Pomeau, Y.2
-
56
-
-
34249080596
-
Theoretical analysis of epigenetic cell memory by nucleosome modification
-
Dodd IB, Micheelsen MA, Sneppen K, Thon G (2007) Theoretical analysis of epigenetic cell memory by nucleosome modification. Cell 129:813-22
-
(2007)
Cell
, vol.129
, pp. 813-822
-
-
Dodd, I.B.1
Micheelsen, M.A.2
Sneppen, K.3
Thon, G.4
-
57
-
-
0344464733
-
Gene Expression Dynamics Inspector (GEDI): For integrative analysis of expression profiles
-
Eichler GS, Huang S, Ingber DE (2003) Gene Expression Dynamics Inspector (GEDI): for integrative analysis of expression profiles. Bioinformatics 19:2321-2322
-
(2003)
Bioinformatics
, vol.19
, pp. 2321-2322
-
-
Eichler, G.S.1
Huang, S.2
Ingber, D.E.3
-
58
-
-
0642285840
-
Preferential attachment in the protein network evolution
-
Eisenberg E, Levanon EY (2003) Preferential attachment in the protein network evolution. Phys Rev Lett 91:138701
-
(2003)
Phys Rev Lett
, vol.91
, pp. 138701
-
-
Eisenberg, E.1
Levanon, E.Y.2
-
59
-
-
0032527272
-
Do stem cells play dice?
-
discussion 352
-
Enver T, Heyworth CM, Dexter TM (1998) Do stem cells play dice? Blood 92:348-51; discussion 352
-
(1998)
Blood
, vol.92
, pp. 348-351
-
-
Enver, T.1
Heyworth, C.M.2
Dexter, T.M.3
-
60
-
-
16644389406
-
A gene regulatory network model for cell-fate determination during Arabidopsis thaliana flower development that is robust and recovers experimental gene expression profiles
-
Espinosa-Soto C, Padilla-Longoria P, Alvarez-Buylla ER (2004) A gene regulatory network model for cell-fate determination during Arabidopsis thaliana flower development that is robust and recovers experimental gene expression profiles. Plant Cell 16:2923-39
-
(2004)
Plant Cell
, vol.16
, pp. 2923-2939
-
-
Espinosa-Soto, C.1
Padilla-Longoria, P.2
Alvarez-Buylla, E.R.3
-
61
-
-
33846400424
-
Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles
-
Faith JJ, Hayete B, Thaden JT, Mogno I, Wierzbowski J, Cottarel G, Kasif S, Collins JJ, Gardner TS (2007) Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles. PLoS Biol 5:e8
-
(2007)
PLoS Biol
, vol.5
, pp. e8
-
-
Faith, J.J.1
Hayete, B.2
Thaden, J.T.3
Mogno, I.4
Wierzbowski, J.5
Cottarel, G.6
Kasif, S.7
Collins, J.J.8
Gardner, T.S.9
-
62
-
-
33747874092
-
Dynamical analysis of a generic Boolean model for the control of the mammalian cell cycle
-
Faure A, Naldi A, Chaouiya C, Thieffry D (2006) Dynamical analysis of a generic Boolean model for the control of the mammalian cell cycle. Bioinformatics 22:e124-31
-
(2006)
Bioinformatics
, vol.22
, pp. e124-e131
-
-
Faure, A.1
Naldi, A.2
Chaouiya, C.3
Thieffry, D.4
-
63
-
-
28344438648
-
A minicircuitry comprised of microRNA-223 and transcription factors NFI-A and C/EBPalpha regulates human granulopoiesis
-
Fazi F, Rosa A, Fatica A, Gelmetti V, De Marchis ML, Nervi C, Bozzoni I (2005) A minicircuitry comprised of microRNA-223 and transcription factors NFI-A and C/EBPalpha regulates human granulopoiesis. Cell 123:819-31
-
(2005)
Cell
, vol.123
, pp. 819-831
-
-
Fazi, F.1
Rosa, A.2
Fatica, A.3
Gelmetti, V.4
De Marchis, M.L.5
Nervi, C.6
Bozzoni, I.7
-
64
-
-
0032496358
-
The biochemical basis of an all-or-none cell fate switch in Xenopus oocytes
-
Ferrell JE Jr., Machleder EM (1998) The biochemical basis of an all-or-none cell fate switch in Xenopus oocytes. Science 280:895-8
-
(1998)
Science
, vol.280
, pp. 895-898
-
-
Ferrell, J.E.1
Machleder, E.M.2
-
65
-
-
0036884695
-
Cellular identity and lineage choice
-
Fisher AG (2002) Cellular identity and lineage choice. Nat Rev Immunol 2:977-82
-
(2002)
Nat Rev Immunol
, vol.2
, pp. 977-982
-
-
Fisher, A.G.1
-
66
-
-
0035650176
-
From topology to dynamics in biochemical networks
-
Fox JJ, Hill CC (2001) From topology to dynamics in biochemical networks. Chaos 11:809-815
-
(2001)
Chaos
, vol.11
, pp. 809-815
-
-
Fox, J.J.1
Hill, C.C.2
-
67
-
-
2942683220
-
Evolutionaryrate depends on number of protein-protein interactions independently of gene expression level
-
Fraser HB, Hirsh AE (2004) Evolutionaryrate depends on number of protein-protein interactions independently of gene expression level. BMC Evol Biol 4:13
-
(2004)
BMC Evol Biol
, vol.4
, pp. 13
-
-
Fraser, H.B.1
Hirsh, A.E.2
-
68
-
-
0037177560
-
Evolutionary rate in the protein interaction network
-
Fraser HB, Hirsh AE, Steinmetz LM, Scharfe C, Feldman MW (2002) Evolutionary rate in the protein interaction network. Science 296:750-2
-
(2002)
Science
, vol.296
, pp. 750-752
-
-
Fraser, H.B.1
Hirsh, A.E.2
Steinmetz, L.M.3
Scharfe, C.4
Feldman, M.W.5
-
69
-
-
24344466882
-
DNA methylation and histone modifications: Teaming up to silence genes
-
Fuks F (2005) DNA methylation and histone modifications: teaming up to silence genes. Curr Opin Genet Dev 15: 490-495
-
(2005)
Curr Opin Genet Dev
, vol.15
, pp. 490-495
-
-
Fuks, F.1
-
70
-
-
38049007472
-
Genome-wide identification of estrogen receptor? binding sites in mouse liver
-
Gao H, Falt S, Sandelin A, Gustafsson JA, Dahlman-Wright K (2007) Genome-wide identification of estrogen receptor? binding sites in mouse liver. Mol Endocrinol 22:10-22
-
(2007)
Mol Endocrinol
, vol.22
, pp. 10-22
-
-
Gao, H.1
Falt, S.2
Sandelin, A.3
Gustafsson, J.A.4
Dahlman-Wright, K.5
-
71
-
-
0034688174
-
Construction of a genetic toggle switch in Escherichia coli
-
Gardner TS, Cantor CR, Collins JJ (2000) Construction of a genetic toggle switch in Escherichia coli. Nature 403:339-342
-
(2000)
Nature
, vol.403
, pp. 339-342
-
-
Gardner, T.S.1
Cantor, C.R.2
Collins, J.J.3
-
72
-
-
2442576146
-
Classification of random Boolean networks
-
Standish RK, Bedau MA, Abbass HA (eds), MIT Press, Cambridge
-
Gershenson C (2002) Classification of random Boolean networks. In: Standish RK, Bedau MA, Abbass HA (eds) Artificial life, vol 8. MIT Press, Cambridge, pp 1-8
-
(2002)
Artificial Life, Vol 8
, pp. 1-8
-
-
Gershenson, C.1
-
73
-
-
0035039580
-
Scale invariance in biology: Coincidence or footprint of a universal mechanism?
-
Gisiger T (2001) Scale invariance in biology: coincidence or footprint of a universal mechanism? Biol Rev Camb Philos Soc 76:161-209
-
(2001)
Biol Rev Camb Philos Soc
, vol.76
, pp. 161-209
-
-
Gisiger, T.1
-
74
-
-
0015296342
-
Co-operative components, spatial localization and oscillatory cellular dynamics
-
Glass L, Kauffman SA (1972) Co-operative components, spatial localization and oscillatory cellular dynamics. J Theor Biol 34:219-37
-
(1972)
J Theor Biol
, vol.34
, pp. 219-237
-
-
Glass, L.1
Kauffman, S.A.2
-
76
-
-
10044260009
-
Problems with fitting to the power-law distribution
-
Goldstein ML, Morris SA, Yen GG (2004) Problems with fitting to the power-law distribution. Eur Phys J B 41:255-258
-
(2004)
Eur Phys J B
, vol.41
, pp. 255-258
-
-
Goldstein, M.L.1
Morris, S.A.2
Yen, G.G.3
-
77
-
-
6244251106
-
Rethinking the origin of species by natural selection
-
Goodwin BC, Webster GC (1999) Rethinking the origin of species by natural selection. Riv Biol 92:464-7
-
(1999)
Riv Biol
, vol.92
, pp. 464-467
-
-
Goodwin, B.C.1
Webster, G.C.2
-
78
-
-
0018692402
-
The spandrels of San Marco and the Panglossian paradigm: A critique of the adaptationist programme
-
Gould SJ, Lewontin RC (1979) The spandrels of San Marco and the Panglossian paradigm: a critique of the adaptationist programme. Proc R Soc Lond B Biol Sci 205:581-98
-
(1979)
Proc R Soc Lond B Biol Sci
, vol.205
, pp. 581-598
-
-
Gould, S.J.1
Lewontin, R.C.2
-
79
-
-
0036566226
-
Differentiation plasticity of hematopoietic cells
-
Graf T (2002) Differentiation plasticity of hematopoietic cells. Blood 99:3089-101
-
(2002)
Blood
, vol.99
, pp. 3089-3101
-
-
Graf, T.1
-
80
-
-
0041806587
-
GATA-1-dependent transcriptional repression of GATA-2 via disruption of positive autoregulation and domain-wide chro-matin remodeling
-
Grass JA, Boyer ME, Pal S, Wu J, Weiss MJ, Bresnick EH (2003) GATA-1-dependent transcriptional repression of GATA-2 via disruption of positive autoregulation and domain-wide chro-matin remodeling. Proc Natl Acad Sci USA 100:8811-6
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 8811-8816
-
-
Grass, J.A.1
Boyer, M.E.2
Pal, S.3
Wu, J.4
Weiss, M.J.5
Bresnick, E.H.6
-
81
-
-
35448944699
-
Critical Kauffman networks under deterministic asynchronous update
-
Greil F, Drossel B, Sattler J (2007) Critical Kauffman networks under deterministic asynchronous update. New J Phys 9:373
-
(2007)
New J Phys
, vol.9
, pp. 373
-
-
Greil, F.1
Drossel, B.2
Sattler, J.3
-
82
-
-
0036578654
-
Topologi-cal and causal structure of the yeast transcriptional regulatory network
-
Guelzim N, Bottani S, Bourgine P, Kepes F (2002) Topologi-cal and causal structure of the yeast transcriptional regulatory network. Nat Genet 31:60-3
-
(2002)
Nat Genet
, vol.31
, pp. 60-63
-
-
Guelzim, N.1
Bottani, S.2
Bourgine, P.3
Kepes, F.4
-
83
-
-
34247482586
-
Towards a holistic, yet gene-centered analysis of gene expression profiles: A case study of human lung cancers
-
Guo Y, Eichler GS, Feng Y, Ingber DE, Huang S (2006) Towards a holistic, yet gene-centered analysis of gene expression profiles: a case study of human lung cancers. J Biomed Biotech-nol 2006:69141
-
(2006)
J Biomed Biotech-nol
, vol.2006
, pp. 69141
-
-
Guo, Y.1
Eichler, G.S.2
Feng, Y.3
Ingber, D.E.4
Huang, S.5
-
84
-
-
16344381521
-
Comparative genomics of cen-trality and essentiality in three eukaryotic protein-interaction networks
-
Hahn MW, Kern AD (2005) Comparative genomics of cen-trality and essentiality in three eukaryotic protein-interaction networks. Mol Biol Evol 22:803-6
-
(2005)
Mol Biol Evol
, vol.22
, pp. 803-806
-
-
Hahn, M.W.1
Kern, A.D.2
-
86
-
-
85040473565
-
A model of transcriptional regulatory networks based on biases in the observed regulation rules
-
Harris SE, Sawhill BK, Wuensche A, Kauffman SA (2002) A model of transcriptional regulatory networks based on biases in the observed regulation rules. Complexity 7:23-40
-
(2002)
Complexity
, vol.7
, pp. 23-40
-
-
Harris, S.E.1
Sawhill, B.K.2
Wuensche, A.3
Kauffman, S.A.4
-
88
-
-
1242342957
-
Computational inference of transcriptional regulatory networks from expression profiling and transcription factor binding site identification
-
Haverty PM, Hansen U, Weng Z (2004) Computational inference of transcriptional regulatory networks from expression profiling and transcription factor binding site identification. Nucleic Acids Res 32:179-88
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 179-188
-
-
Haverty, P.M.1
Hansen, U.2
Weng, Z.3
-
89
-
-
3042767202
-
MicroRNAs: Small RNAs with a big role in gene regulation
-
He L, Hannon GJ (2004) MicroRNAs: small RNAs with a big role in gene regulation. Nat Rev Genet 5:522-31
-
(2004)
Nat Rev Genet
, vol.5
, pp. 522-531
-
-
He, L.1
Hannon, G.J.2
-
91
-
-
33745632618
-
Nuclear reprogramming and pluripotency
-
Hochedlinger K, Jaenisch R (2006) Nuclear reprogramming and pluripotency. Nature 441:1061-7
-
(2006)
Nature
, vol.441
, pp. 1061-1067
-
-
Hochedlinger, K.1
Jaenisch, R.2
-
92
-
-
0030954167
-
Multilineage gene expression precedes commitment in the hemopoietic system
-
Hu M, Krause D, Greaves M, Sharkis S, Dexter M, Heyworth C, Enver T (1997) Multilineage gene expression precedes commitment in the hemopoietic system. Genes Dev 11:774-85
-
(1997)
Genes Dev
, vol.11
, pp. 774-785
-
-
Hu, M.1
Krause, D.2
Greaves, M.3
Sharkis, S.4
Dexter, M.5
Heyworth, C.6
Enver, T.7
-
93
-
-
3042721988
-
Back to the biology in systems biology: What can we learn from biomolecular networks
-
Huang S (2004) Back to the biology in systems biology: what can we learn from biomolecular networks. Brief Funct Ge-nomics Proteomics 2:279-297
-
(2004)
Brief Funct Ge-nomics Proteomics
, vol.2
, pp. 279-297
-
-
Huang, S.1
-
94
-
-
84928854778
-
Cell fates as attractors-stability and flexibility of cellular phenotype
-
Cambridge University Press, New York
-
Huang S (2007) Cell fates as attractors-stability and flexibility of cellular phenotype. In: Endothelial biomedicine, 1st edn, Cambridge University Press, New York, pp 1761-1779
-
(2007)
Endothelial Biomedicine, 1st Edn
, pp. 1761-1779
-
-
Huang, S.1
-
95
-
-
0034715919
-
Shape-dependent control of cell growth, differentiation, and apoptosis: Switching between attractors in cell regulatory networks
-
Huang S, Ingber DE (2000) Shape-dependent control of cell growth, differentiation, and apoptosis: switching between attractors in cell regulatory networks. Exp Cell Res 261:91-103
-
(2000)
Exp Cell Res
, vol.261
, pp. 91-103
-
-
Huang, S.1
Ingber, D.E.2
-
96
-
-
34247535888
-
A non-genetic basis for cancer progression and metastasis: Self-organizing attractors in cell regulatory networks
-
Huang S, Ingber DE (2006) A non-genetic basis for cancer progression and metastasis: self-organizing attractors in cell regulatory networks. Breast Dis 26:27-54
-
(2006)
Breast Dis
, vol.26
, pp. 27-54
-
-
Huang, S.1
Ingber, D.E.2
-
98
-
-
18144408736
-
Cell fates as high-dimensional attractor states of a complex gene regulatory network
-
Huang S, Eichler G, Bar-Yam Y, Ingber DE (2005) Cell fates as high-dimensional attractor states of a complex gene regulatory network. Phys Rev Lett 94:128701
-
(2005)
Phys Rev Lett
, vol.94
, pp. 128701
-
-
Huang, S.1
Eichler, G.2
Bar-Yam, Y.3
Ingber, D.E.4
-
99
-
-
34248199004
-
Bifurcation dynamics of cell fate decision in bipotent progenitor cells
-
Huang S, Guo YP, May G, Enver T (2007) Bifurcation dynamics of cell fate decision in bipotent progenitor cells. Dev Biol 305:695-713
-
(2007)
Dev Biol
, vol.305
, pp. 695-713
-
-
Huang, S.1
Guo, Y.P.2
May, G.3
Enver, T.4
-
100
-
-
0034616930
-
Functional discovery via a compendium of expression profiles
-
Hughes TR, Marton MJ, Jones AR, Roberts CJ, Stoughton R, Armour CD, Bennett HA, Coffey E, Dai H, He YD, Kidd MJ, King AM, Meyer MR, Slade D, Lum PY, Stepaniants SB, Shoemaker DD, Gachotte D, Chakraburtty K, Simon J, Bard M, Friend SH (2000) Functional discovery via a compendium of expression profiles. Cell 102:109-26
-
(2000)
Cell
, vol.102
, pp. 109-126
-
-
Hughes, T.R.1
Marton, M.J.2
Jones, A.R.3
Roberts, C.J.4
Stoughton, R.5
Armour, C.D.6
Bennett, H.A.7
Coffey, E.8
Dai, H.9
He, Y.D.10
Kidd, M.J.11
King, A.M.12
Meyer, M.R.13
Slade, D.14
Lum, P.Y.15
Stepaniants, S.B.16
Shoemaker, D.D.17
Gachotte, D.18
Chakraburtty, K.19
Simon, J.20
Bard, M.21
Friend, S.H.22
more..
-
101
-
-
0034307684
-
Probability in transcriptional regulation and its implications for leukocyte differentiation and inducible gene expression
-
Hume DA (2000) Probability in transcriptional regulation and its implications for leukocyte differentiation and inducible gene expression. Blood 96:2323-8
-
(2000)
Blood
, vol.96
, pp. 2323-2328
-
-
Hume, D.A.1
-
102
-
-
4544339167
-
Defining transcription modules using large-scale gene expression data
-
Ihmels J, Bergmann S, Barkai N (2004) Defining transcription modules using large-scale gene expression data. Bioinfor-matics 20:1993-2003
-
(2004)
Bioinfor-matics
, vol.20
, pp. 1993-2003
-
-
Ihmels, J.1
Bergmann, S.2
Barkai, N.3
-
103
-
-
0036960243
-
The changing concept of epige-netics
-
Jablonka E, Lamb MJ (2002) The changing concept of epige-netics. Ann N Y Acad Sci 981:82-96
-
(2002)
Ann N y Acad Sci
, vol.981
, pp. 82-96
-
-
Jablonka, E.1
Lamb, M.J.2
-
105
-
-
34250159524
-
Genome-wide mapping of in vivo protein-DNA interactions
-
Johnson DS, Mortazavi A, Myers RM, Wold B (2007) Genome-wide mapping of in vivo protein-DNA interactions. Science 316:1497-502
-
(2007)
Science
, vol.316
, pp. 1497-1502
-
-
Johnson, D.S.1
Mortazavi, A.2
Myers, R.M.3
Wold, B.4
-
106
-
-
0842291785
-
No simple dependence between protein evolution rate and the number of protein-protein interactions: Only the most prolific interactors tend to evolve slowly
-
Jordan IK, Wolf YI, Koonin EV (2003) No simple dependence between protein evolution rate and the number of protein-protein interactions: only the most prolific interactors tend to evolve slowly. BMC Evol Biol 3:1
-
(2003)
BMC Evol Biol
, vol.3
, pp. 1
-
-
Jordan, I.K.1
Wolf, Y.I.2
Koonin, E.V.3
-
107
-
-
27744469130
-
High-be-tweenness proteins in the yeast protein interaction network
-
Joy MP, Brock A, Ingber DE, Huang S (2005) High-be-tweenness proteins in the yeast protein interaction network. J Biomed Biotechnol 2005:96-103
-
(2005)
J Biomed Biotechnol
, vol.2005
, pp. 96-103
-
-
Joy, M.P.1
Brock, A.2
Ingber, D.E.3
Huang, S.4
-
110
-
-
54249117585
-
Adaptive response of a gene network to environmental changes by fitness-induced attractor selection
-
Kashiwagi K, Urabe I, Kancko K, Yomo T (2006) Adaptive response of a gene network to environmental changes by fitness-induced attractor selection. PLoS One, 1:e49
-
(2006)
PLoS One
, vol.1
, pp. e49
-
-
Kashiwagi, K.1
Urabe, I.2
Kancko, K.3
Yomo, T.4
-
111
-
-
0014671878
-
Homeostasis and differentiation in random genetic control networks
-
Kauffman S (1969) Homeostasis and differentiation in random genetic control networks. Nature 224:177-8
-
(1969)
Nature
, vol.224
, pp. 177-178
-
-
Kauffman, S.1
-
112
-
-
4444311806
-
A proposal for using the ensemble approach to understand genetic regulatory networks
-
Kauffman S (2004) A proposal for using the ensemble approach to understand genetic regulatory networks. J Theor Biol 230:581-90
-
(2004)
J Theor Biol
, vol.230
, pp. 581-590
-
-
Kauffman, S.1
-
114
-
-
0014489272
-
Metabolic stability and epigenesis in randomly constructed genetic nets
-
Kauffman SA (1969) Metabolic stability and epigenesis in randomly constructed genetic nets. J Theor Biol 22:437-467
-
(1969)
J Theor Biol
, vol.22
, pp. 437-467
-
-
Kauffman, S.A.1
-
115
-
-
0026403912
-
Antichaos and adaptation
-
Kauffman SA (1991) Antichaos and adaptation. Sci Am 265:78-84
-
(1991)
Sci Am
, vol.265
, pp. 78-84
-
-
Kauffman, S.A.1
-
117
-
-
0842324785
-
The nucleosome: From genomic organization to genomic regulation
-
Khorasanizadeh S (2004) The nucleosome: from genomic organization to genomic regulation. Cell 116:259-72
-
(2004)
Cell
, vol.116
, pp. 259-272
-
-
Khorasanizadeh, S.1
-
118
-
-
34047225832
-
Potential energy landscape and robustness of a gene regulatory network: Toggle switch
-
Kim KY, Wang J (2007) Potential energy landscape and robustness of a gene regulatory network: toggle switch. PLoS Comput Biol 3:e60
-
(2007)
PLoS Comput Biol
, vol.3
, pp. e60
-
-
Kim, K.Y.1
Wang, J.2
-
120
-
-
0842342616
-
A genomewide oscillation in transcription gates DNA replication and cell cycle
-
Klevecz RR, Bolen J, Forrest G, Murray DB (2004) A genomewide oscillation in transcription gates DNA replication and cell cycle. Proc Natl Acad Sci USA 101:1200-5
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 1200-1205
-
-
Klevecz, R.R.1
Bolen, J.2
Forrest, G.3
Murray, D.B.4
-
121
-
-
16344370048
-
Finding regulatory modules through large-scale gene-expression data analysis
-
Kloster M, Tang C, Wingreen NS (2005) Finding regulatory modules through large-scale gene-expression data analysis. Bioinformatics 21:1172-9
-
(2005)
Bioinformatics
, vol.21
, pp. 1172-1179
-
-
Kloster, M.1
Tang, C.2
Wingreen, N.S.3
-
122
-
-
33847076849
-
Chromatin modifications and their function
-
Kouzarides T (2007) Chromatin modifications and their function. Cell 128:693-705
-
(2007)
Cell
, vol.128
, pp. 693-705
-
-
Kouzarides, T.1
-
123
-
-
22144452865
-
Hysteresis in a synthetic mammalian gene network
-
Kramer BP, Fussenegger M (2005) Hysteresis in a synthetic mammalian gene network. Proc Natl Acad Sci USA 102: 9517-9522
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 9517-9522
-
-
Kramer, B.P.1
Fussenegger, M.2
-
124
-
-
34147102223
-
Basin entropy in Boolean network ensembles
-
Krawitz P, Shmulevich I (2007) Basin entropy in Boolean network ensembles. Phys Rev Lett 98:158701
-
(2007)
Phys Rev Lett
, vol.98
, pp. 158701
-
-
Krawitz, P.1
Shmulevich, I.2
-
125
-
-
33846593911
-
A two-step, PU.1-depen-dent mechanism for developmentally regulated chromatin remodeling and transcription of the c-fms gene
-
Krysinska H, Hoogenkamp M, Ingram R, Wilson N, Tagoh H, Laslo P, Singh H, Bonifer C (2007) A two-step, PU.1-depen-dent mechanism for developmentally regulated chromatin remodeling and transcription of the c-fms gene. Mol Cell Biol 27:878-87
-
(2007)
Mol Cell Biol
, vol.27
, pp. 878-887
-
-
Krysinska, H.1
Hoogenkamp, M.2
Ingram, R.3
Wilson, N.4
Tagoh, H.5
Laslo, P.6
Singh, H.7
Bonifer, C.8
-
126
-
-
11144277879
-
A crack in histone lysine methy-lation
-
Kubicek S, Jenuwein T (2004) A crack in histone lysine methy-lation. Cell 119:903-6
-
(2004)
Cell
, vol.119
, pp. 903-906
-
-
Kubicek, S.1
Jenuwein, T.2
-
127
-
-
33747196725
-
Multilin-eage transcriptional priming and determination of alternate hematopoietic cell fates
-
Laslo P, Spooner CJ, Warmflash A, Lancki DW, Lee HJ, Sci-ammas R, Gantner BN, Dinner AR, Singh H (2006) Multilin-eage transcriptional priming and determination of alternate hematopoietic cell fates. Cell 126:755-66
-
(2006)
Cell
, vol.126
, pp. 755-766
-
-
Laslo, P.1
Spooner, C.J.2
Warmflash, A.3
Lancki, D.W.4
Lee, H.J.5
Sci-Ammas, R.6
Gantner, B.N.7
Dinner, A.R.8
Singh, H.9
-
128
-
-
0037174671
-
Transcriptional regulatory networks in Saccha-romyces cerevisiae
-
Lee TI, Rinaldi NJ, Robert F, Odom DT, Bar-Joseph Z, Ger-ber GK, Hannett NM, Harbison CT, Thompson CM, Simon I, Zeitlinger J, Jennings EG, Murray HL, Gordon DB, Ren B, Wyrick JJ, Tagne JB, Volkert TL, Fraenkel E, Gifford DK, Young RA (2002) Transcriptional regulatory networks in Saccha-romyces cerevisiae. Science 298:799-804
-
(2002)
Science
, vol.298
, pp. 799-804
-
-
Lee, T.I.1
Rinaldi, N.J.2
Robert, F.3
Odom, D.T.4
Bar-Joseph, Z.5
Ger-Ber, G.K.6
Hannett, N.M.7
Harbison, C.T.8
Thompson, C.M.9
Simon, I.10
Zeitlinger, J.11
Jennings, E.G.12
Murray, H.L.13
Gordon, D.B.14
Ren, B.15
Wyrick, J.J.16
Tagne, J.B.17
Volkert, T.L.18
Fraenkel, E.19
Gifford, D.K.20
Young, R.A.21
more..
-
129
-
-
0037213715
-
Gene expression and the myth of the average cell
-
Levsky JM, Singer RH (2003) Gene expression and the myth of the average cell. Trends Cell Biol 13:4-6
-
(2003)
Trends Cell Biol
, vol.13
, pp. 4-6
-
-
Levsky, J.M.1
Singer, R.H.2
-
130
-
-
1842687878
-
The yeast cell-cycle network is robustly designed
-
Li F, Long T, Lu Y, Ouyang Q, Tang C (2004) The yeast cell-cycle network is robustly designed. Proc Natl Acad Sci USA 101:4781-6
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 4781-4786
-
-
Li, F.1
Long, T.2
Lu, Y.3
Ouyang, Q.4
Tang, C.5
-
132
-
-
33846561583
-
A multistep epigenetic switch enables the stable inheritance of DNA methylation states
-
Lim HN, van Oudenaarden A (2007) A multistep epigenetic switch enables the stable inheritance of DNA methylation states. Nat Genet 39:269-75
-
(2007)
Nat Genet
, vol.39
, pp. 269-275
-
-
Lim, H.N.1
Van Oudenaarden, A.2
-
133
-
-
33846681448
-
Modular organization of protein interaction networks
-
Luo F, Yang Y, Chen CF, Chang R, Zhou J, Scheuermann RH (2007) Modular organization of protein interaction networks. Bioinformatics 23:207-14
-
(2007)
Bioinformatics
, vol.23
, pp. 207-214
-
-
Luo, F.1
Yang, Y.2
Chen, C.F.3
Chang, R.4
Zhou, J.5
Scheuermann, R.H.6
-
134
-
-
4644326931
-
Genomic analysis of regulatory network dynamics reveals large topological changes
-
Luscombe NM, Babu MM, Yu H, Snyder M, Teichmann SA, Ger-stein M (2004) Genomic analysis of regulatory network dynamics reveals large topological changes. Nature 431:308-12
-
(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
Ger-Stein, M.6
-
136
-
-
0142027814
-
Structure and function of the feed-forward loop network motif
-
Mangan S, Alon U (2003) Structure and function of the feed-forward loop network motif. Proc Natl Acad Sci USA 100:11980-5
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 11980-11985
-
-
Mangan, S.1
Alon, U.2
-
137
-
-
33845402401
-
An entropic characterization of protein interaction networks and cellular robustness
-
Manke T, Demetrius L, Vingron M (2006) An entropic characterization of protein interaction networks and cellular robustness. JR Soc Interface 3:843-50
-
(2006)
JR Soc Interface
, vol.3
, pp. 843-850
-
-
Manke, T.1
Demetrius, L.2
Vingron, M.3
-
138
-
-
0035409444
-
The path not taken
-
Marcotte EM (2001) The path not taken. Nat Biotechnol 19:626-627
-
(2001)
Nat Biotechnol
, vol.19
, pp. 626-627
-
-
Marcotte, E.M.1
-
139
-
-
36248989626
-
Theory and limitations of genetic network inference from microarray data
-
Margolin AA, Califano A (2007) Theory and limitations of genetic network inference from microarray data. Ann N Y Acad Sci 1115:51-72
-
(2007)
Ann N y Acad Sci
, vol.1115
, pp. 51-72
-
-
Margolin, A.A.1
Califano, A.2
-
140
-
-
0037012880
-
Specificity and stability in topology of protein networks
-
Maslov S, Sneppen K (2002) Specificity and stability in topology of protein networks. Science 296:910-3
-
(2002)
Science
, vol.296
, pp. 910-913
-
-
Maslov, S.1
Sneppen, K.2
-
141
-
-
34249740942
-
A new paradigm for developmental biology
-
Mattick JS (2007) A new paradigm for developmental biology. J Exp Biol 210:1526-47
-
(2007)
J Exp Biol
, vol.210
, pp. 1526-1547
-
-
Mattick, J.S.1
-
142
-
-
0015514970
-
Will a large complex system be stable?
-
May RM (1972) Will a large complex system be stable? Nature 238:413-414
-
(1972)
Nature
, vol.238
, pp. 413-414
-
-
May, R.M.1
-
143
-
-
35148845584
-
Direct reprogram-ming of genetically unmodified fibroblasts into pluripotent stem cells
-
Meissner A, Wernig M, Jaenisch R (2007) Direct reprogram-ming of genetically unmodified fibroblasts into pluripotent stem cells. Nat Biotechnol 25:1177-1181
-
(2007)
Nat Biotechnol
, vol.25
, pp. 1177-1181
-
-
Meissner, A.1
Wernig, M.2
Jaenisch, R.3
-
144
-
-
33646926758
-
Dynamic nucleosomes and gene transcription
-
Mellor J (2006) Dynamic nucleosomes and gene transcription. Trends Genet 22:320-9
-
(2006)
Trends Genet
, vol.22
, pp. 320-329
-
-
Mellor, J.1
-
145
-
-
33748434801
-
Histone demethyla-tion and androgen-dependent transcription
-
Metzger E, Wissmann M, Schule R (2006) Histone demethyla-tion and androgen-dependent transcription. Curr Opin Genet Dev 16:513-7
-
(2006)
Curr Opin Genet Dev
, vol.16
, pp. 513-517
-
-
Metzger, E.1
Wissmann, M.2
Schule, R.3
-
146
-
-
23844482548
-
Deconstructing stemness
-
Mikkers H, Frisen J (2005) Deconstructing stemness. Embo J 24:2715-9
-
(2005)
Embo J
, vol.24
, pp. 2715-2719
-
-
Mikkers, H.1
Frisen, J.2
-
147
-
-
0037174670
-
Network motifs: Simple building blocks of complex networks
-
Milo R, Shen-Orr S, Itzkovitz S, Kashtan N, Chklovskii D, Alon U (2002) Network motifs: simple building blocks of complex networks. Science 298:824-7
-
(2002)
Science
, vol.298
, pp. 824-827
-
-
Milo, R.1
Shen-Orr, S.2
Itzkovitz, S.3
Kashtan, N.4
Chklovskii, D.5
Alon, U.6
-
148
-
-
73049167504
-
Teleonomic mechanisms in cellular metabolism, growth, and differentiation
-
Monod J, Jacob F (1961) Teleonomic mechanisms in cellular metabolism, growth, and differentiation. Cold Spring Harb Symp Quant Biol 26:389-401
-
(1961)
Cold Spring Harb Symp Quant Biol
, vol.26
, pp. 389-401
-
-
Monod, J.1
Jacob, F.2
-
149
-
-
15044342856
-
GATA-1: Friends, brothers, and coworkers
-
Morceau F, Schnekenburger M, Dicato M, Diederich M (2004) GATA-1: friends, brothers, and coworkers. Ann N Y Acad Sci 1030:537-54
-
(2004)
Ann N y Acad Sci
, vol.1030
, pp. 537-554
-
-
Morceau, F.1
Schnekenburger, M.2
Dicato, M.3
Diederich, M.4
-
152
-
-
0038718854
-
The structure and function of complex networks
-
Newman MEJ (2003) The structure and function of complex networks. SIAM Review 45:167-256
-
(2003)
SIAM Review
, vol.45
, pp. 167-256
-
-
Newman, M.E.J.1
-
153
-
-
41149161598
-
Gene expression dynamics in the macrophage exhibit criticality
-
Nykter M, Price ND, Aldana M, Ramsey SA, Kauffman SA, Hood L, Yli-Harja O, Shmulevich I (2008) Gene expression dynamics in the macrophage exhibit criticality. Proc Natl Acad Sci USA 105:1897-900
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 1897-1900
-
-
Nykter, M.1
Price, N.D.2
Aldana, M.3
Ramsey, S.A.4
Kauffman, S.A.5
Hood, L.6
Yli-Harja, O.7
Shmulevich, I.8
-
154
-
-
40049110244
-
Critical networks exhibit maximal information diversity in structure-dynamics relationships
-
Nykter M, Price ND, Larjo A, Aho T, Kauffman SA, Yli-Harja O, Shmulevich I (2008) Critical networks exhibit maximal information diversity in structure-dynamics relationships. Phys Rev Lett 100:058702
-
(2008)
Phys Rev Lett
, vol.100
, pp. 058702
-
-
Nykter, M.1
Price, N.D.2
Larjo, A.3
Aho, T.4
Kauffman, S.A.5
Yli-Harja, O.6
Shmulevich, I.7
-
155
-
-
10744227070
-
Control of pancreas and liver gene expression by HNF transcription factors
-
Odom DT, Zizlsperger N, Gordon DB, Bell GW, Rinaldi NJ, Murray HL, Volkert TL, Schreiber J, Rolfe PA, Gifford DK, Fraenkel E, Bell GI, Young RA (2004) Control of pancreas and liver gene expression by HNF transcription factors. Science 303:1378-81
-
(2004)
Science
, vol.303
, pp. 1378-1381
-
-
Odom, D.T.1
Zizlsperger, N.2
Gordon, D.B.3
Bell, G.W.4
Rinaldi, N.J.5
Murray, H.L.6
Volkert, T.L.7
Schreiber, J.8
Rolfe, P.A.9
Gifford, D.K.10
Fraenkel, E.11
Bell, G.I.12
Young, R.A.13
-
156
-
-
34249880066
-
Generation of germline-competent induced pluripotent stem cells
-
Okita K, Ichisaka T, Yamanaka S (2007) Generation of germline-competent induced pluripotent stem cells. Nature 448:313-7
-
(2007)
Nature
, vol.448
, pp. 313-317
-
-
Okita, K.1
Ichisaka, T.2
Yamanaka, S.3
-
157
-
-
1442354192
-
Multistability in the lactose utilization network of Escherichia coli
-
Ozbudak EM, Thattai M, Lim HN, Shraiman BI, Van Oudenaar-den A (2004) Multistability in the lactose utilization network of Escherichia coli. Nature 427:737-740
-
(2004)
Nature
, vol.427
, pp. 737-740
-
-
Ozbudak, E.M.1
Thattai, M.2
Lim, H.N.3
Shraiman, B.I.4
Van Oudenaar-Den, A.5
-
158
-
-
0038341719
-
Human genome. A low number wins the GeneSweep Pool
-
Pennisi E (2003) Human genome. A low number wins the GeneSweep Pool. Science 300:1484
-
(2003)
Science
, vol.300
, pp. 1484
-
-
Pennisi, E.1
-
161
-
-
0344393410
-
Adult stem cell plasticity: Fact or artifact?
-
Raff M (2003) Adult stem cell plasticity: fact or artifact? Annu Rev Cell Dev Biol 19:1-22
-
(2003)
Annu Rev Cell Dev Biol
, vol.19
, pp. 1-22
-
-
Raff, M.1
-
162
-
-
22244487659
-
Genetic regulation of stem cell origins in the mouse embryo
-
Ralston A and Rossant J (2005) Genetic regulation of stem cell origins in the mouse embryo. Clin Genet 68:106-12
-
(2005)
Clin Genet
, vol.68
, pp. 106-112
-
-
Ralston, A.1
Rossant, J.2
-
163
-
-
33747118681
-
Perturbation avalanches and criticality in gene regulatory networks
-
Ramo P, Kesseli J, Yli-Harja O (2006) Perturbation avalanches and criticality in gene regulatory networks. J Theor Biol 242:164-70
-
(2006)
J Theor Biol
, vol.242
, pp. 164-170
-
-
Ramo, P.1
Kesseli, J.2
Yli-Harja, O.3
-
164
-
-
0037199968
-
Hierarchical organization of modularity in metabolic networks
-
Ravasz E, Somera AL, Mongru DA, Oltvai ZN, Barabasi AL (2002) Hierarchical organization of modularity in metabolic networks. Science 297:1551-5
-
(2002)
Science
, vol.297
, pp. 1551-1555
-
-
Ravasz, E.1
Somera, A.L.2
Mongru, D.A.3
Oltvai, Z.N.4
Barabasi, A.L.5
-
165
-
-
0037078973
-
Back to the beginning
-
Reik W, Dean W (2002) Back to the beginning. Nature 420:127
-
(2002)
Nature
, vol.420
, pp. 127
-
-
Reik, W.1
Dean, W.2
-
166
-
-
13144283679
-
Modular analysis of the transcriptional regulatory network of E. coli
-
Resendis-Antonio O, Freyre-Gonzalez JA, Menchaca-Mendez R, Gutierrez-Rios RM, Martinez-Antonio A, Avila-Sanchez C, Collado-Vides J (2005) Modular analysis of the transcriptional regulatory network of E. coli. Trends Genet 21:16-20
-
(2005)
Trends Genet
, vol.21
, pp. 16-20
-
-
Resendis-Antonio, O.1
Freyre-Gonzalez, J.A.2
Menchaca-Mendez, R.3
Gutierrez-Rios, R.M.4
Martinez-Antonio, A.5
Avila-Sanchez, C.6
Collado-Vides, J.7
-
167
-
-
28844468371
-
A relative-entropy algorithm for genomic fingerprinting captures host-phage similarities
-
Robins H, Krasnitz M, Barak H, Levine AJ (2005) A relative-entropy algorithm for genomic fingerprinting captures host-phage similarities. J Bacteriol 187:8370-4
-
(2005)
J Bacteriol
, vol.187
, pp. 8370-8374
-
-
Robins, H.1
Krasnitz, M.2
Barak, H.3
Levine, A.J.4
-
168
-
-
33746040437
-
Towards an understanding of lineage specification in hematopoietic stem cells: A mathematical model for the interaction of transcription factors GATA-1 and PU.1
-
Roeder I, Glauche I (2006) Towards an understanding of lineage specification in hematopoietic stem cells: a mathematical model for the interaction of transcription factors GATA-1 and PU.1. J Theor Biol 241:852-65
-
(2006)
J Theor Biol
, vol.241
, pp. 852-865
-
-
Roeder, I.1
Glauche, I.2
-
169
-
-
30644465547
-
The comprehensive updated regulatory network of Escherichia coli K-12
-
Salgado H, Santos-Zavaleta A, Gama-Castro S, Peralta-Gil M, Penaloza-Spinola MI, Martinez-Antonio A, Karp PD, Collado-Vides J (2006) The comprehensive updated regulatory network of Escherichia coli K-12. BMC Bioinformatics 7:5
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 5
-
-
Salgado, H.1
Santos-Zavaleta, A.2
Gama-Castro, S.3
Peralta-Gil, M.4
Penaloza-Spinola, M.I.5
Martinez-Antonio, A.6
Karp, P.D.7
Collado-Vides, J.8
-
170
-
-
0036245495
-
Segmental duplications and the evolution of the primate genome
-
Samonte RV, Eichler EE (2002) Segmental duplications and the evolution of the primate genome. Nat Rev Genet 3:65-72
-
(2002)
Nat Rev Genet
, vol.3
, pp. 65-72
-
-
Samonte, R.V.1
Eichler, E.E.2
-
171
-
-
13844312493
-
Assessment of tumor characteristic gene expression in cell lines using a tissue similarity index (TSI)
-
Sandberg R, Ernberg I (2005) Assessment of tumor characteristic gene expression in cell lines using a tissue similarity index (TSI). Proc Natl Acad Sci USA 102:2052-7
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 2052-2057
-
-
Sandberg, R.1
Ernberg, I.2
-
172
-
-
33845242919
-
MicroRNAs: Regulators of gene expression and cell differentiation
-
Shivdasani RA (2006) MicroRNAs: regulators of gene expression and cell differentiation. Blood 108:3646-53
-
(2006)
Blood
, vol.108
, pp. 3646-3653
-
-
Shivdasani, R.A.1
-
173
-
-
4344706221
-
Activities and sensitivities in boolean network models
-
Shmulevich I, Kauffman SA (2004) Activities and sensitivities in boolean network models. Phys Rev Lett 93:048701
-
(2004)
Phys Rev Lett
, vol.93
, pp. 048701
-
-
Shmulevich, I.1
Kauffman, S.A.2
-
174
-
-
26444561930
-
Eukaryotic cells are dynamically ordered or critical but not chaotic
-
Shmulevich I, Kauffman SA, Aldana M (2005) Eukaryotic cells are dynamically ordered or critical but not chaotic. Proc Natl Acad Sci USA 102:13439-44
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 13439-13444
-
-
Shmulevich, I.1
Kauffman, S.A.2
Aldana, M.3
-
175
-
-
33845637127
-
Functional and evolutionary inference in gene networks: Does topology matter?
-
Siegal ML, Promislow DE, Bergman A (2007) Functional and evolutionary inference in gene networks: does topology matter? Genetica 129:83-103
-
(2007)
Genetica
, vol.129
, pp. 83-103
-
-
Siegal, M.L.1
Promislow, D.E.2
Bergman, A.3
-
176
-
-
35448953506
-
Glutathione and Gts1p drive beneficial variability in the cadmium resistances of individual yeast cells
-
Smith MC, Sumner ER, Avery SV (2007) Glutathione and Gts1p drive beneficial variability in the cadmium resistances of individual yeast cells. Mol Microbiol 66:699-712
-
(2007)
Mol Microbiol
, vol.66
, pp. 699-712
-
-
Smith, M.C.1
Sumner, E.R.2
Avery, S.V.3
-
178
-
-
2942617034
-
Has the yo-yo stopped? An assessment of human protein-coding gene number
-
Southan C (2004) Has the yo-yo stopped? An assessment of human protein-coding gene number. Proteomics 4:1712-26
-
(2004)
Proteomics
, vol.4
, pp. 1712-1726
-
-
Southan, C.1
-
179
-
-
0034056969
-
Conrad H. Waddington's contributions to avian and mammalian development, 1930-1940
-
Stern CD (2000) Conrad H. Waddington's contributions to avian and mammalian development, 1930-1940. Int J Dev Biol 44:15-22
-
(2000)
Int J Dev Biol
, vol.44
, pp. 15-22
-
-
Stern, C.D.1
-
180
-
-
14744287564
-
Epigenesis: The missing beat in biotechnology?
-
Strohman R (1994) Epigenesis: the missing beat in biotechnology? Biotechnology (N Y) 12:156-64
-
(1994)
Biotechnology (N Y)
, vol.12
, pp. 156-164
-
-
Strohman, R.1
-
181
-
-
15444372528
-
Subnets of scale-free networks are not scale-free: Sampling properties of networks
-
Stumpf MP, Wiuf C, May RM (2005) Subnets of scale-free networks are not scale-free: sampling properties of networks. Proc Natl Acad Sci USA 102:4221-4
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 4221-4224
-
-
Stumpf, M.P.1
Wiuf, C.2
May, R.M.3
-
182
-
-
33646157746
-
Site-specific DNA methylation by a complex of PU.1 and Dnmt3a/b
-
Suzuki M, Yamada T, Kihara-Negishi F, Sakurai T, Hara E, Tenen DG, Hozumi N, Oikawa T (2006) Site-specific DNA methylation by a complex of PU.1 and Dnmt3a/b. Oncogene 25:2477-88
-
(2006)
Oncogene
, vol.25
, pp. 2477-2488
-
-
Suzuki, M.1
Yamada, T.2
Kihara-Negishi, F.3
Sakurai, T.4
Hara, E.5
Tenen, D.G.6
Hozumi, N.7
Oikawa, T.8
-
183
-
-
33745000256
-
Genetic regulatory networks programming hematopoietic stem cells and erythroid lineage specification
-
Swiers G, Patient R, Loose M (2006) Genetic regulatory networks programming hematopoietic stem cells and erythroid lineage specification. Dev Biol 294:525-40
-
(2006)
Dev Biol
, vol.294
, pp. 525-540
-
-
Swiers, G.1
Patient, R.2
Loose, M.3
-
184
-
-
33747195353
-
Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors
-
Takahashi K, Yamanaka S (2006) Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors. Cell 126:663-76
-
(2006)
Cell
, vol.126
, pp. 663-676
-
-
Takahashi, K.1
Yamanaka, S.2
-
185
-
-
21644434750
-
The circuitry of a master switch: Myod and the regulation of skeletal muscle gene transcription
-
Tapscott SJ (2005) The circuitry of a master switch: Myod and the regulation of skeletal muscle gene transcription. Development 132:2685-95
-
(2005)
Development
, vol.132
, pp. 2685-2695
-
-
Tapscott, S.J.1
-
186
-
-
10944230777
-
Duplication and divergence: The evolution of new genes and old ideas
-
Taylor JS, Raes J (2004) Duplication and divergence: The evolution of new genes and old ideas. Annu Rev Genet 38: 615-643
-
(2004)
Annu Rev Genet
, vol.38
, pp. 615-643
-
-
Taylor, J.S.1
Raes, J.2
-
187
-
-
2442537233
-
Gene regulatory network growth by duplication
-
Teichmann SA, Babu MM (2004) Gene regulatory network growth by duplication. Nat Genet 36:492-6
-
(2004)
Nat Genet
, vol.36
, pp. 492-496
-
-
Teichmann, S.A.1
Babu, M.M.2
-
188
-
-
0032077377
-
From specific gene regulation to genomic networks: A global analysis of transcriptional regulation in Escherichia coli
-
Thieffry D, Huerta AM, Perez-Rueda E, Collado-Vides J (1998) From specific gene regulation to genomic networks: a global analysis of transcriptional regulation in Escherichia coli. Bioessays 20:433-40
-
(1998)
Bioessays
, vol.20
, pp. 433-440
-
-
Thieffry, D.1
Huerta, A.M.2
Perez-Rueda, E.3
Collado-Vides, J.4
-
189
-
-
0002763112
-
Derived activities; Their causation, biological significance, origin, and emancipation during evolution
-
Tinbergen N (1952) Derived activities; their causation, biological significance, origin, and emancipation during evolution. Q Rev Biol 27:1-32
-
(1952)
Q Rev Biol
, vol.27
, pp. 1-32
-
-
Tinbergen, N.1
-
190
-
-
0036191190
-
Inference of a genetic network by a combined approach of cluster analysis and graphical Gaussian modeling
-
Toh H, Horimoto K (2002) Inference of a genetic network by a combined approach of cluster analysis and graphical Gaussian modeling. Bioinformatics 18:287-97
-
(2002)
Bioinformatics
, vol.18
, pp. 287-297
-
-
Toh, H.1
Horimoto, K.2
-
191
-
-
33646486601
-
Histone lysine demethylases and their impact on epigenetics
-
Trojer P, Reinberg D (2006) Histone lysine demethylases and their impact on epigenetics. Cell 125:213-7
-
(2006)
Cell
, vol.125
, pp. 213-217
-
-
Trojer, P.1
Reinberg, D.2
-
192
-
-
0037376655
-
Sniffers, buzzers, toggles and blinkers: Dynamics of regulatory and signaling pathways in the cell
-
Tyson JJ, Chen KC, Novak B (2003) Sniffers, buzzers, toggles and blinkers: dynamics of regulatory and signaling pathways in the cell. Curr Opin Cell Biol 15:221-231
-
(2003)
Curr Opin Cell Biol
, vol.15
, pp. 221-231
-
-
Tyson, J.J.1
Chen, K.C.2
Novak, B.3
-
194
-
-
0041828241
-
Scalinglawsinthe functional content of genomes
-
van Nimwegen E (2003) Scalinglawsinthe functional content of genomes. Trends Genet 19:479-84
-
(2003)
Trends Genet
, vol.19
, pp. 479-484
-
-
Van Nimwegen, E.1
-
195
-
-
0142052965
-
Stem cells. 'Stemness' genes still elusive
-
Vogel G (2003) Stem cells. 'Stemness' genes still elusive. Science 302:371
-
(2003)
Science
, vol.302
, pp. 371
-
-
Vogel, G.1
-
199
-
-
4344696555
-
The "new" science of networks
-
Watts DJ (2004) The "new" science of networks. Ann Rev Sociol 20:243-270
-
(2004)
Ann Rev Sociol
, vol.20
, pp. 243-270
-
-
Watts, D.J.1
-
200
-
-
0033186859
-
A structuralist approach to morphology
-
Webster G, Goodwin BC (1999) A structuralist approach to morphology. Riv Biol 92:495-8
-
(1999)
Riv Biol
, vol.92
, pp. 495-498
-
-
Webster, G.1
Goodwin, B.C.2
-
201
-
-
34249908901
-
In vitro repro-gramming of fibroblasts into a pluripotent ES-cell-like state
-
Wernig M, Meissner A, Foreman R, Brambrink T, Ku M, Hochedlinger K, Bernstein BE, Jaenisch R (2007) In vitro repro-gramming of fibroblasts into a pluripotent ES-cell-like state. Nature 448:318-24
-
(2007)
Nature
, vol.448
, pp. 318-324
-
-
Wernig, M.1
Meissner, A.2
Foreman, R.3
Brambrink, T.4
Ku, M.5
Hochedlinger, K.6
Bernstein, B.E.7
Jaenisch, R.8
-
202
-
-
0035985177
-
Identification of genes periodically expressed in the human cell cycle and their expression in tumors
-
Whitfield ML, Sherlock G, Saldanha AJ, Murray JI, Ball CA, Alexander KE, Matese JC, Perou CM, Hurt MM, Brown PO, Bot-stein D (2002) Identification of genes periodically expressed in the human cell cycle and their expression in tumors. Mol Biol Cell 13:1977-2000
-
(2002)
Mol Biol Cell
, vol.13
, pp. 1977-2000
-
-
Whitfield, M.L.1
Sherlock, G.2
Saldanha, A.J.3
Murray, J.I.4
Ball, C.A.5
Alexander, K.E.6
Matese, J.C.7
Perou, C.M.8
Hurt, M.M.9
Brown, P.O.10
Bot-Stein, D.11
-
203
-
-
34547489607
-
Colloquium Papers: Between "design" and "bricolage": Genetic networks, levels of selection, and adaptive evolution
-
Wilkins AS (2007) Colloquium Papers: Between "design" and "bricolage": Genetic networks, levels of selection, and adaptive evolution. Proc Natl Acad Sci USA 104 Suppl 1:8590-6
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 8590-8596
-
-
Wilkins, A.S.1
-
204
-
-
0031630211
-
Genomic regulation modeled as a network with basins of attraction
-
Wuensche A (1998) Genomic regulation modeled as a network with basins of attraction. Pac Symp Biocomput:89-102
-
(1998)
Pac Symp Biocomput
, pp. 89-102
-
-
Wuensche, A.1
-
205
-
-
0345359924
-
A positive-feedback-based bistable 'memory module' that governs a cell fate decision
-
Xiong W, Ferrell JE Jr. (2003) A positive-feedback-based bistable 'memory module' that governs a cell fate decision. Nature 426:460-465
-
(2003)
Nature
, vol.426
, pp. 460-465
-
-
Xiong, W.1
Ferrell, J.E.2
-
206
-
-
10044280457
-
Learning module networks from genome-wide location and expression data
-
Xu X, Wang L, Ding D (2004) Learning module networks from genome-wide location and expression data. FEBS Lett 578:297-304
-
(2004)
FEBS Lett
, vol.578
, pp. 297-304
-
-
Xu, X.1
Wang, L.2
Ding, D.3
-
207
-
-
2442477788
-
Ge-nomic analysis of essentiality within protein networks
-
Yu H, Greenbaum D, Xin Lu H, Zhu X, Gerstein M (2004) Ge-nomic analysis of essentiality within protein networks. Trends Genet 20:227-31
-
(2004)
Trends Genet
, vol.20
, pp. 227-231
-
-
Yu, H.1
Greenbaum, D.2
Xin Lu, H.3
Zhu, X.4
Gerstein, M.5
-
208
-
-
34247622363
-
The importance of bottlenecks in protein networks: Correlation with gene essentiality and expression dynamics
-
Yu H, Kim PM, Sprecher E, Trifonov V, Gerstein M (2007) The importance of bottlenecks in protein networks: correlation with gene essentiality and expression dynamics. PLoS Comput Biol 3:e59
-
(2007)
PLoS Comput Biol
, vol.3
, pp. e59
-
-
Yu, H.1
Kim, P.M.2
Sprecher, E.3
Trifonov, V.4
Gerstein, M.5
-
209
-
-
0035094449
-
Cis-regulatory logic in the endo16 gene: Switching from a specification to a differentiation mode of control
-
Yuh CH, Bolouri H, Davidson EH (2001) Cis-regulatory logic in the endo16 gene: switching from a specification to a differentiation mode of control. Development 128:617-29
-
(2001)
Development
, vol.128
, pp. 617-629
-
-
Yuh, C.H.1
Bolouri, H.2
Davidson, E.H.3
-
210
-
-
3042721988
-
Back to the biology in systems biology: What can we learn from biomolecular networks
-
Huang S (2004) Back to the biology in systems biology: what can we learn from biomolecular networks. Brief Funct Genomics Proteomics 2:279-297
-
(2004)
Brief Funct Genomics Proteomics
, vol.2
, pp. 279-297
-
-
Huang, S.1
-
211
-
-
84928854778
-
Cell fates as attractors-stability and flexibility of cellular phenotype
-
Cambridge University Press, New York
-
Huang S (2007) Cell fates as attractors-stability and flexibility of cellular phenotype. In: Endothelial biomedicine, 1st edn. Cambridge University Press, New York, pp 1761-1779
-
(2007)
Endothelial Biomedicine, 1st Edn
, pp. 1761-1779
-
-
Huang, S.1
-
212
-
-
34247535888
-
A non-genetic basis for cancer progression and metastasis: Self-organizing attractors in cell regulatory networks
-
Huang S, Ingber DE (2006) A non-genetic basis for cancer progression and metastasis: self-organizing attractors in cell regulatory networks. Breast Dis 26:27-54
-
(2006)
Breast Dis
, vol.26
, pp. 27-54
-
-
Huang, S.1
Ingber, D.E.2
-
214
-
-
0026403912
-
Antichaos and adaptation
-
Kauffman SA (1991) Antichaos and adaptation. Sci Am 265:78-84
-
(1991)
Sci Am
, vol.265
, pp. 78-84
-
-
Kauffman, S.A.1
-
217
-
-
0033230728
-
Multistability: A major means of differentiation and evolution in biological systems
-
Laurent M, Kellershohn N (1999) Multistability: a major means of differentiation and evolution in biological systems. Trends Biochem Sci 24:418-422
-
(1999)
Trends Biochem Sci
, vol.24
, pp. 418-422
-
-
Laurent, M.1
Kellershohn, N.2
-
218
-
-
34547489607
-
Colloquium papers: Between "design" and "brico-lage": Genetic networks, levels of selection, and adaptive evolution
-
Wilkins AS (2007) Colloquium papers: Between "design" and "brico-lage": Genetic networks, levels of selection, and adaptive evolution. Proc Natl Acad Sci USA 104 Suppl 1:8590-6
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 8590-8596
-
-
Wilkins, A.S.1
|