-
1
-
-
0036469065
-
Signal transduction and the control of gene expression
-
Brivanlou, A.H. and Darnell, J.E. (2002) Signal transduction and the control of gene expression. Science, 295, 813-818.
-
(2002)
Science
, vol.295
, pp. 813-818
-
-
Brivanlou, A.H.1
Darnell, J.E.2
-
2
-
-
77958096076
-
Determining the specificity of protein-DNA interactions
-
Stormo, G.D. and Zhao, Y. (2010) Determining the specificity of protein-DNA interactions. Nat. Rev. Genet., 11, 751-760.
-
(2010)
Nat. Rev. Genet.
, vol.11
, pp. 751-760
-
-
Stormo, G.D.1
Zhao, Y.2
-
3
-
-
68949213578
-
Insights from genomic profiling of transcription factors
-
Farnham, P.J. (2009) Insights from genomic profiling of transcription factors. Nat Rev Genet, 10, 605-616.
-
(2009)
Nat Rev Genet
, vol.10
, pp. 605-616
-
-
Farnham, P.J.1
-
4
-
-
84871891211
-
Dendrimer functionalization of gold surface improves the measurement of protein-DNA interactions by surface plasmon resonance imaging
-
Pillet, F., Sanchez, A., Formosa, C., Severac, M., Trevisiol, E., Bouet, J.Y. and Anton Leberre, V. (2013) Dendrimer functionalization of gold surface improves the measurement of protein-DNA interactions by surface plasmon resonance imaging. Biosens. Bioelectron., 43, 148-154.
-
(2013)
Biosens. Bioelectron.
, vol.43
, pp. 148-154
-
-
Pillet, F.1
Sanchez, A.2
Formosa, C.3
Severac, M.4
Trevisiol, E.5
Bouet, J.Y.6
Anton Leberre, V.7
-
5
-
-
84897893577
-
A force-based, parallel assay for the quantification of protein-DNA interactions
-
Limmer, K., Pippig, D.A., Aschenbrenner, D. and Gaub, H.E. (2014) A force-based, parallel assay for the quantification of protein-DNA interactions. PLoS One, 9, e89626.
-
(2014)
PLoS One
, vol.9
, pp. e89626
-
-
Limmer, K.1
Pippig, D.A.2
Aschenbrenner, D.3
Gaub, H.E.4
-
6
-
-
79960277492
-
Direct measurement of DNA affinity landscapes on a high-throughput sequencing instrument
-
Nutiu, R., Friedman, R. and Luo, S. (2011) Direct measurement of DNA affinity landscapes on a high-throughput sequencing instrument. Nat. Biotechnol., 29, 659-664.
-
(2011)
Nat. Biotechnol.
, vol.29
, pp. 659-664
-
-
Nutiu, R.1
Friedman, R.2
Luo, S.3
-
7
-
-
84914132430
-
Protein-DNA binding in the absence of specific base-pair recognition
-
Afek, A., Schipper, J.L., Horton, J., Gord?an, R. and Lukatsky, D.B. (2014) Protein-DNA binding in the absence of specific base-pair recognition. Proc. Natl. Acad. Sci. U.S.A., 111, 17140-17145.
-
(2014)
Proc. Natl. Acad. Sci. U.S.A.
, vol.111
, pp. 17140-17145
-
-
Afek, A.1
Schipper, J.L.2
Horton, J.3
Gordan, R.4
Lukatsky, D.B.5
-
8
-
-
33746691336
-
Extensive low-affinity transcriptional interactions in the yeast genome Extensive low-affinity transcriptional interactions in the yeast genome
-
Tanay, A. (2006) Extensive low-affinity transcriptional interactions in the yeast genome Extensive low-affinity transcriptional interactions in the yeast genome. Genome Res., 8, 962-972.
-
(2006)
Genome Res.
, vol.8
, pp. 962-972
-
-
Tanay, A.1
-
9
-
-
38749127589
-
Predicting expression patterns from regulatory sequence in Drosophila segmentation
-
Segal, E., Raveh-Sadka, T., Schroeder, M., Unnerstall, U. and Gaul, U. (2008) Predicting expression patterns from regulatory sequence in Drosophila segmentation. Nature, 451, 535-540.
-
(2008)
Nature
, vol.451
, pp. 535-540
-
-
Segal, E.1
Raveh-Sadka, T.2
Schroeder, M.3
Unnerstall, U.4
Gaul, U.5
-
10
-
-
77956654773
-
De novo identification and biophysical characterization of transcription-factor binding sites with microfluidic affinity analysis
-
Fordyce, P.M., Gerber, D., Tran, D., Zheng, J., Li, H., DeRisi, J.L. and Quake, S.R. (2010) De novo identification and biophysical characterization of transcription-factor binding sites with microfluidic affinity analysis. Nat. Biotechnol., 28, 962-967.
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 962-967
-
-
Fordyce, P.M.1
Gerber, D.2
Tran, D.3
Zheng, J.4
Li, H.5
DeRisi, J.L.6
Quake, S.R.7
-
11
-
-
67649982744
-
Diversity and complexity in DNA recognition by transcription factors
-
Badis, G., Berger, M.F., Philippakis, A.A., Talukder, S., Gehrke, A.R., Jaeger, S.A., Chan, E.T., Metzler, G., Vedenko, A., Chen, X., et al. (2009) Diversity and complexity in DNA recognition by transcription factors. Science, 324, 1720-1723.
-
(2009)
Science
, vol.324
, pp. 1720-1723
-
-
Badis, G.1
Berger, M.F.2
Philippakis, A.A.3
Talukder, S.4
Gehrke, A.R.5
Jaeger, S.A.6
Chan, E.T.7
Metzler, G.8
Vedenko, A.9
Chen, X.10
-
12
-
-
84928033171
-
Quantitative modeling of transcription factor binding specificities using DNA shape
-
Zhou, T., Shen, N., Yang, L., Abe, N., Horton, J., Mann, R.S., Bussemaker, H.J., Gord?an, R. and Rohs, R. (2015) Quantitative modeling of transcription factor binding specificities using DNA shape. Proc. Natl. Acad. Sci. U.S.A., 112, 4654-4659.
-
(2015)
Proc. Natl. Acad. Sci. U.S.A.
, vol.112
, pp. 4654-4659
-
-
Zhou, T.1
Shen, N.2
Yang, L.3
Abe, N.4
Horton, J.5
Mann, R.S.6
Bussemaker, H.J.7
Gordan, R.8
Rohs, R.9
-
13
-
-
58149354385
-
Analysis of combinatorial cis-regulation in synthetic and genomic promoters
-
Gertz, J., Siggia, E.D. and Cohen, B.A. (2009) Analysis of combinatorial cis-regulation in synthetic and genomic promoters. Nature, 457, 215-218.
-
(2009)
Nature
, vol.457
, pp. 215-218
-
-
Gertz, J.1
Siggia, E.D.2
Cohen, B.A.3
-
14
-
-
55549113874
-
A quantitative model of transcription factor-activated gene expression
-
Kim, H.D. and O'Shea, E.K. (2008) A quantitative model of transcription factor-activated gene expression. Nat. Struct. Mol. Biol., 15, 1192-1198.
-
(2008)
Nat. Struct. Mol. Biol.
, vol.15
, pp. 1192-1198
-
-
Kim, H.D.1
O'Shea, E.K.2
-
15
-
-
67649826220
-
From DNA sequence to transcriptional behaviour: A quantitative approach
-
Segal, E. and Widom, J. (2009) From DNA sequence to transcriptional behaviour: a quantitative approach. Nat. Rev. Genet., 10, 443-456.
-
(2009)
Nat. Rev. Genet.
, vol.10
, pp. 443-456
-
-
Segal, E.1
Widom, J.2
-
16
-
-
0035094449
-
Cis-regulatory logic in the endo16 gene: Switching from a specification to a differentiation mode of control
-
Yuh, C.H., Bolouri, H. and Davidson, E.H. (2001) Cis-regulatory logic in the endo16 gene: switching from a specification to a differentiation mode of control. Development, 128, 617-629.
-
(2001)
Development
, vol.128
, pp. 617-629
-
-
Yuh, C.H.1
Bolouri, H.2
Davidson, E.H.3
-
17
-
-
0034704248
-
Genome-wide location and function of DNA binding proteins
-
Ren, B., Robert, F., Wyrick, J.J., Aparicio, O., Jennings, E.G., Simon, I., Zeitlinger, J., Schreiber, J., Hannett, N., Kanin, E., et al. (2000) Genome-wide location and function of DNA binding proteins. Science, 290, 2306-2309.
-
(2000)
Science
, vol.290
, pp. 2306-2309
-
-
Ren, B.1
Robert, F.2
Wyrick, J.J.3
Aparicio, O.4
Jennings, E.G.5
Simon, I.6
Zeitlinger, J.7
Schreiber, J.8
Hannett, N.9
Kanin, E.10
-
18
-
-
34250159524
-
Genome-wide mapping of in vivo protein-DNA interactions
-
Johnson, D.S., Mortazavi, A., Myers, R.M. and Wold, B. (2007) Genome-wide mapping of in vivo protein-DNA interactions. Science, 316, 1497-1502.
-
(2007)
Science
, vol.316
, pp. 1497-1502
-
-
Johnson, D.S.1
Mortazavi, A.2
Myers, R.M.3
Wold, B.4
-
19
-
-
83255164884
-
Comprehensive genome-wide protein-DNA interactions detected at single-nucleotide resolution
-
Rhee, H.S. and Pugh, B.F. (2011) Comprehensive genome-wide protein-DNA interactions detected at single-nucleotide resolution. Cell, 147, 1408-1419.
-
(2011)
Cell
, vol.147
, pp. 1408-1419
-
-
Rhee, H.S.1
Pugh, B.F.2
-
20
-
-
0018199224
-
DNAse footprinting: A simple method for the detection of protein-DNA binding specificity
-
Galas, D.J. and Schmitz, A. (1978) DNAse footprinting: a simple method for the detection of protein-DNA binding specificity. Nucleic Acids Res., 5, 3157-3170.
-
(1978)
Nucleic Acids Res.
, vol.5
, pp. 3157-3170
-
-
Galas, D.J.1
Schmitz, A.2
-
21
-
-
0019877067
-
A gel electrophoresis method for quantifying the binding of proteins to specific DNA regions: Application to components of the Escherichia coli lactose operon regulatory system
-
Garner, M.M. and Revzin, A. (1981) A gel electrophoresis method for quantifying the binding of proteins to specific DNA regions: Application to components of the Escherichia coli lactose operon regulatory system. Nucleic Acids Res., 9, 3047-3060.
-
(1981)
Nucleic Acids Res.
, vol.9
, pp. 3047-3060
-
-
Garner, M.M.1
Revzin, A.2
-
22
-
-
33847770317
-
SPR microscopy and its applications to high-throughput analyses of biomolecular binding events and their kinetics
-
Campbell, C.T. and Kim, G. (2007) SPR microscopy and its applications to high-throughput analyses of biomolecular binding events and their kinetics. Biomaterials, 28, 2380-2392.
-
(2007)
Biomaterials
, vol.28
, pp. 2380-2392
-
-
Campbell, C.T.1
Kim, G.2
-
23
-
-
1842580880
-
Parallel, quantitative measurement of protein binding to a 120-element double-stranded DNA array in real time using surface plasmon resonance microscopy
-
Shumaker-Parry, J.S., Aebersold, R. and Campbell, C.T. (2004) Parallel, quantitative measurement of protein binding to a 120-element double-stranded DNA array in real time using surface plasmon resonance microscopy. Anal. Chem., 76, 2071-2082.
-
(2004)
Anal. Chem.
, vol.76
, pp. 2071-2082
-
-
Shumaker-Parry, J.S.1
Aebersold, R.2
Campbell, C.T.3
-
24
-
-
34250661506
-
Identifying DNA sequences recognized by a transcription factor using a bacterial one-hybrid system
-
Meng, X. and Wolfe, S.A. (2006) Identifying DNA sequences recognized by a transcription factor using a bacterial one-hybrid system. Nat. Protoc., 1, 30-45.
-
(2006)
Nat. Protoc.
, vol.1
, pp. 30-45
-
-
Meng, X.1
Wolfe, S.A.2
-
25
-
-
23444446753
-
A bacterial one-hybrid system for determining the DNA-binding specificity of transcription factors
-
Meng, X., Brodsky, M.H. and Wolfe, S.A. (2005) A bacterial one-hybrid system for determining the DNA-binding specificity of transcription factors. Nat. Biotechnol., 23, 988-994.
-
(2005)
Nat. Biotechnol.
, vol.23
, pp. 988-994
-
-
Meng, X.1
Brodsky, M.H.2
Wolfe, S.A.3
-
26
-
-
83255188878
-
Cofactor binding evokes latent differences in DNA binding specificity between Hox proteins
-
Slattery, M., Riley, T., Liu, P., Abe, N., Gomez-Alcala, P., Dror, I., Zhou, T., Rohs, R., Honig, B. and Bussemaker, H.J. (2011) Cofactor binding evokes latent differences in DNA binding specificity between Hox proteins. Cell, 147, 1270-1282.
-
(2011)
Cell
, vol.147
, pp. 1270-1282
-
-
Slattery, M.1
Riley, T.2
Liu, P.3
Abe, N.4
Gomez-Alcala, P.5
Dror, I.6
Zhou, T.7
Rohs, R.8
Honig, B.9
Bussemaker, H.J.10
-
27
-
-
77953006022
-
Multiplexed massively parallel SELEX for characterization of human transcription factor binding specificities
-
Jolma, A., Kivioja, T., Toivonen, J., Cheng, L., Wei, G., Enge, M., Taipale, M., Vaquerizas, J.M., Yan, J. and Sillanpää, M.J. (2010) Multiplexed massively parallel SELEX for characterization of human transcription factor binding specificities. Genome Res., 20, 861-873.
-
(2010)
Genome Res.
, vol.20
, pp. 861-873
-
-
Jolma, A.1
Kivioja, T.2
Toivonen, J.3
Cheng, L.4
Wei, G.5
Enge, M.6
Taipale, M.7
Vaquerizas, J.M.8
Yan, J.9
Sillanpää, M.J.10
-
28
-
-
74549209548
-
Inferring binding energies from selected binding sites
-
Zhao, Y., Granas, D. and Stormo, G.D. (2009) Inferring binding energies from selected binding sites. PLoS Comput. Biol., 5, 1-8.
-
(2009)
PLoS Comput. Biol.
, vol.5
, pp. 1-8
-
-
Zhao, Y.1
Granas, D.2
Stormo, G.D.3
-
29
-
-
32244448130
-
Defining the sequence-recognition profile of DNA-binding molecules
-
Warren, C.L., Kratochvil, N.C.S., Hauschild, K.E., Foister, S., Brezinski, M.L., Dervan, P.B., Phillips, G.N. and Ansari, A.Z. (2006) Defining the sequence-recognition profile of DNA-binding molecules. Proc. Natl. Acad. Sci. U.S.A., 103, 867-872.
-
(2006)
Proc. Natl. Acad. Sci. U.S.A.
, vol.103
, pp. 867-872
-
-
Warren, C.L.1
Kratochvil, N.C.S.2
Hauschild, K.E.3
Foister, S.4
Brezinski, M.L.5
Dervan, P.B.6
Phillips, G.N.7
Ansari, A.Z.8
-
30
-
-
33750882505
-
Compact, universal DNA microarrays to comprehensively determine transcription-factor binding site specificities
-
Berger, M.F., Philippakis, A.A., Qureshi, A.M., He, F.S., Estep, P.W. and Bulyk, M.L. (2006) Compact, universal DNA microarrays to comprehensively determine transcription-factor binding site specificities. Nat. Biotechnol., 24, 1429-1435.
-
(2006)
Nat. Biotechnol.
, vol.24
, pp. 1429-1435
-
-
Berger, M.F.1
Philippakis, A.A.2
Qureshi, A.M.3
He, F.S.4
Estep, P.W.5
Bulyk, M.L.6
-
31
-
-
9644268153
-
Rapid analysis of the DNA-binding specificities of transcription factors with DNA microarrays
-
Mukherjee, S., Berger, M.F., Jona, G., Wang, X.S., Muzzey, D., Snyder, M., Young, R.A. and Bulyk, M.L. (2004) Rapid analysis of the DNA-binding specificities of transcription factors with DNA microarrays. Nat. Genet., 36, 1331-1339.
-
(2004)
Nat. Genet.
, vol.36
, pp. 1331-1339
-
-
Mukherjee, S.1
Berger, M.F.2
Jona, G.3
Wang, X.S.4
Muzzey, D.5
Snyder, M.6
Young, R.A.7
Bulyk, M.L.8
-
32
-
-
0035912721
-
Exploring the DNA-binding specificities of zinc fingers with DNA microarrays
-
Bulyk, M.L., Huang, X., Choo, Y. and Church, G.M. (2001) Exploring the DNA-binding specificities of zinc fingers with DNA microarrays. Proc. Natl. Acad. Sci. U.S.A., 98, 7158-7163.
-
(2001)
Proc. Natl. Acad. Sci. U.S.A.
, vol.98
, pp. 7158-7163
-
-
Bulyk, M.L.1
Huang, X.2
Choo, Y.3
Church, G.M.4
-
33
-
-
84891768983
-
TFBSshape: A motif database for DNA shape features of transcription factor binding sites
-
Yang, L., Zhou, T., Dror, I., Mathelier, A., Wasserman, W.W., Gord?an, R. and Rohs, R. (2014) TFBSshape: a motif database for DNA shape features of transcription factor binding sites. Nucleic Acids Res., 42, D148-D155.
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. D148-D155
-
-
Yang, L.1
Zhou, T.2
Dror, I.3
Mathelier, A.4
Wasserman, W.W.5
Gordan, R.6
Rohs, R.7
-
34
-
-
84876955991
-
Genomic regions flanking E-box binding sites influence DNA binding specificity of bHLH transcription factors through DNA shape
-
Gord?an, R., Shen, N., Dror, I., Zhou, T., Horton, J., Rohs, R. and Bulyk, M.L. (2013) Genomic regions flanking E-box binding sites influence DNA binding specificity of bHLH transcription factors through DNA shape. Cell Rep., 3, 1093-1104.
-
(2013)
Cell Rep.
, vol.3
, pp. 1093-1104
-
-
Gordan, R.1
Shen, N.2
Dror, I.3
Zhou, T.4
Horton, J.5
Rohs, R.6
Bulyk, M.L.7
-
35
-
-
34548169696
-
Electrophoretic mobility shift assay (EMSA) for detecting protein-nucleic acid interactions
-
Hellman, L.M. and Fried, M.G. (2007) Electrophoretic mobility shift assay (EMSA) for detecting protein-nucleic acid interactions. Nat. Protoc., 2, 1849-1861.
-
(2007)
Nat. Protoc.
, vol.2
, pp. 1849-1861
-
-
Hellman, L.M.1
Fried, M.G.2
-
36
-
-
84867053770
-
Advances in the study of protein-DNA interaction
-
Cai, Y.-H. and Huang, H. (2012) Advances in the study of protein-DNA interaction. Amino Acids, 43, 1141-1146.
-
(2012)
Amino Acids
, vol.43
, pp. 1141-1146
-
-
Cai, Y.-H.1
Huang, H.2
-
37
-
-
0026490544
-
Use of gel retardation to analyze protein-nucleic acid interactions
-
Lane, D., Prentki, P. and Chandler, M. (1992) Use of gel retardation to analyze protein-nucleic acid interactions. Microbiol. Rev., 56, 509-528.
-
(1992)
Microbiol. Rev.
, vol.56
, pp. 509-528
-
-
Lane, D.1
Prentki, P.2
Chandler, M.3
-
38
-
-
4444274983
-
Mass spectrometric identification of RNA binding proteins from dried EMSA gels
-
Stenger, D., Gruissem, W. and Baginsky, S. (2004) Mass Spectrometric Identification of RNA Binding Proteins from Dried EMSA Gels. J. Proteome Res., 3, 662-664.
-
(2004)
J. Proteome Res.
, vol.3
, pp. 662-664
-
-
Stenger, D.1
Gruissem, W.2
Baginsky, S.3
-
39
-
-
58149112132
-
Characterization of DNA-binding proteins using multiplexed competitor EMSA
-
Smith, A.J.P. and Humphries, S.E. (2009) Characterization of DNA-binding proteins using multiplexed competitor EMSA. J. Mol. Biol., 385, 714-717.
-
(2009)
J. Mol. Biol.
, vol.385
, pp. 714-717
-
-
Smith, A.J.P.1
Humphries, S.E.2
-
40
-
-
0030576613
-
Design and optimization of a capillary electrophoretic mobility shift assay involving trp repressor-DNA complexes
-
Stebbins, M.A., Hoyt, A.M., Sepaniak, M.J. and Hurlburt, B.K. (1996) Design and optimization of a capillary electrophoretic mobility shift assay involving trp repressor-DNA complexes. J. Chromatogr. B Biomed. Sci. Appl., 683, 77-84.
-
(1996)
J. Chromatogr. B Biomed. Sci. Appl.
, vol.683
, pp. 77-84
-
-
Stebbins, M.A.1
Hoyt, A.M.2
Sepaniak, M.J.3
Hurlburt, B.K.4
-
41
-
-
0032530598
-
A capillary electrophoresis mobility shift assay for protein-DNA binding affinities free in solution
-
Foulds, G.J. and Etzkorn, F.A. (1998) A capillary electrophoresis mobility shift assay for protein-DNA binding affinities free in solution. Nucleic Acids Res., 26, 4304-4305.
-
(1998)
Nucleic Acids Res.
, vol.26
, pp. 4304-4305
-
-
Foulds, G.J.1
Etzkorn, F.A.2
-
42
-
-
84874611408
-
Microfluidic screening of electrophoretic mobility shifts elucidates riboswitch binding function
-
Karns, K., Vogan, J.M., Qin, Q., Hickey, S.F., Wilson, S.C., Hammond, M.C. and Herr, A.E. (2013) Microfluidic screening of electrophoretic mobility shifts elucidates riboswitch binding function. J. Am. Chem. Soc., 135, 3136-3143.
-
(2013)
J. Am. Chem. Soc.
, vol.135
, pp. 3136-3143
-
-
Karns, K.1
Vogan, J.M.2
Qin, Q.3
Hickey, S.F.4
Wilson, S.C.5
Hammond, M.C.6
Herr, A.E.7
-
43
-
-
0035288179
-
Exploiting sensitive laser-induced fluorescence detection on electrophoretic microchips for executing rapid clinical diagnostics
-
Ferrance, J. and Landers, J.P. (2001) Exploiting sensitive laser-induced fluorescence detection on electrophoretic microchips for executing rapid clinical diagnostics. Luminescence, 16, 79-88.
-
(2001)
Luminescence
, vol.16
, pp. 79-88
-
-
Ferrance, J.1
Landers, J.P.2
-
44
-
-
0035449448
-
Temperature measurement in microfluidic systems using a temperature-dependent fluorescent dye
-
Ross, D., Gaitan, M. and Locascio, L.E. (2001) Temperature measurement in microfluidic systems using a temperature-dependent fluorescent dye. Anal. Chem., 73, 4117-4123.
-
(2001)
Anal. Chem.
, vol.73
, pp. 4117-4123
-
-
Ross, D.1
Gaitan, M.2
Locascio, L.E.3
-
45
-
-
0036789387
-
Microfabricated 384-lane capillary array electrophoresis bioanalyzer for ultrahigh-throughput genetic analysis
-
Emrich, C.A., Tian, H., Medintz, I.L. and Mathies, R.A. (2002) Microfabricated 384-lane capillary array electrophoresis bioanalyzer for ultrahigh-throughput genetic analysis. Anal. Chem., 74, 5076-5083.
-
(2002)
Anal. Chem.
, vol.74
, pp. 5076-5083
-
-
Emrich, C.A.1
Tian, H.2
Medintz, I.L.3
Mathies, R.A.4
-
46
-
-
84910627244
-
High-throughput electrophoretic mobility shift assays for quantitative analysis of molecular binding reactions
-
Pan, Y., Duncombe, T.A., Kellenberger, C.A., Hammond, M.C. and Herr, A.E. (2014) High-Throughput Electrophoretic Mobility Shift Assays for Quantitative Analysis of Molecular Binding Reactions.Anal. Chem., 86, 10357-10364.
-
(2014)
Anal. Chem.
, vol.86
, pp. 10357-10364
-
-
Pan, Y.1
Duncombe, T.A.2
Kellenberger, C.A.3
Hammond, M.C.4
Herr, A.E.5
-
47
-
-
84867372779
-
Massively parallel measurements of molecular interaction kinetics on a microfluidic platform
-
Geertz, M., Shore, D. and Maerkl, S.J. (2012) Massively parallel measurements of molecular interaction kinetics on a microfluidic platform. Proc. Natl. Acad. Sci. U.S.A., 109, 16540-16545.
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
, pp. 16540-16545
-
-
Geertz, M.1
Shore, D.2
Maerkl, S.J.3
-
48
-
-
0038185273
-
Genome-wide analysis of CREB target genes reveals a core promoter requirement for cAMP responsiveness
-
Conkright, M.D., Guzmen, E., Flechner, L., Su, A.I., Hogenesch, J.B. and Montminy, M. (2003) Genome-wide analysis of CREB target genes reveals a core promoter requirement for cAMP responsiveness. Mol. Cell, 11, 1101-1108.
-
(2003)
Mol. Cell
, vol.11
, pp. 1101-1108
-
-
Conkright, M.D.1
Guzmen, E.2
Flechner, L.3
Su, A.I.4
Hogenesch, J.B.5
Montminy, M.6
-
49
-
-
0037101970
-
Function and regulation of CREB family transcription factors in the nervous system
-
Lonze, B.E. and Ginty, D.D. (2002) Function and regulation of CREB family transcription factors in the nervous system. Neuron, 35, 605-623.
-
(2002)
Neuron
, vol.35
, pp. 605-623
-
-
Lonze, B.E.1
Ginty, D.D.2
-
50
-
-
0030972807
-
Transcriptional regulation by cyclic AMP
-
Montminy, M. (1997) Transcriptional regulation by cyclic AMP. Annu. Rev. Biochem., 66, 807-822.
-
(1997)
Annu. Rev. Biochem.
, vol.66
, pp. 807-822
-
-
Montminy, M.1
-
51
-
-
0023798751
-
Fos and jun: The AP-1 connection
-
Curran, T. and Franza, B.R. (1988) Fos and jun: The AP-1 connection. Cell, 55, 395-397.
-
(1988)
Cell
, vol.55
, pp. 395-397
-
-
Curran, T.1
Franza, B.R.2
-
52
-
-
0028321474
-
Different binding specificities and transactivation of variant CRE's by CREB complexes
-
Benbrook, D.M. and Jones, N.C. (1994) Different binding specificities and transactivation of variant CRE's by CREB complexes. Nucleic Acids Res., 22, 1463-1469.
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 1463-1469
-
-
Benbrook, D.M.1
Jones, N.C.2
-
53
-
-
0033998440
-
Stimulus-specific assembly of enhancer complexes on the tumor necrosis factor alpha gene promoter
-
Falvo, J. V, Uglialoro, A.M., Brinkman, B.M., Merika, M., Parekh, B.S., Tsai, E.Y., King, H.C., Morielli, A.D., Peralta, E.G., Maniatis, T., et al. (2000) Stimulus-specific assembly of enhancer complexes on the tumor necrosis factor alpha gene promoter. Mol. Cell. Biol., 20, 2239-2247.
-
(2000)
Mol. Cell. Biol.
, vol.20
, pp. 2239-2247
-
-
Falvo, J.V.1
Uglialoro, A.M.2
Brinkman, B.M.3
Merika, M.4
Parekh, B.S.5
Tsai, E.Y.6
King, H.C.7
Morielli, A.D.8
Peralta, E.G.9
Maniatis, T.10
-
54
-
-
0023771685
-
C-Jun dimerizes with itself and with c-Fos, forming complexes of different DNA binding affinities
-
Halazonetis, T.D., Georgopoulos, K., Greenberg, M.E. and Leder, P. (1988) c-Jun dimerizes with itself and with c-Fos, forming complexes of different DNA binding affinities. Cell, 55, 917-924.
-
(1988)
Cell
, vol.55
, pp. 917-924
-
-
Halazonetis, T.D.1
Georgopoulos, K.2
Greenberg, M.E.3
Leder, P.4
-
55
-
-
33846467150
-
A systems approach to measuring the binding energy landscapes of transcription factors
-
Maerkl, S.J. and Quake, S.R. (2007) A systems approach to measuring the binding energy landscapes of transcription factors. Science, 315, 233-237.
-
(2007)
Science
, vol.315
, pp. 233-237
-
-
Maerkl, S.J.1
Quake, S.R.2
-
56
-
-
84868288217
-
High-throughput protein expression generator using a microfluidic platform
-
Glick, Y., Avrahami, D., Michaely, E. and Gerber, D. (2012) High-throughput protein expression generator using a microfluidic platform. J Vis Exp, 23, e3849.
-
(2012)
J Vis Exp
, vol.23
, pp. e3849
-
-
Glick, Y.1
Avrahami, D.2
Michaely, E.3
Gerber, D.4
-
58
-
-
84883590358
-
DNAshape: A method for the high-throughput prediction of DNA structural features on a genomic scale
-
Zhou, T., Yang, L., Lu, Y., Dror, I., Machado, A.C.D., Ghane, T., Di Felice, R. and Rohs, R. (2013) DNAshape: a method for the high-throughput prediction of DNA structural features on a genomic scale. Nucleic Acids Res., 41, 56-62.
-
(2013)
Nucleic Acids Res.
, vol.41
, pp. 56-62
-
-
Zhou, T.1
Yang, L.2
Lu, Y.3
Dror, I.4
Machado, A.C.D.5
Ghane, T.6
Di Felice, R.7
Rohs, R.8
-
59
-
-
7444260846
-
The ENCODE (ENCyclopedia of DNA elements) project
-
The ENCODE Project Consortium.
-
The ENCODE Project Consortium. (2004) The ENCODE (ENCyclopedia of DNA elements) project. Science, 306, 636-640.
-
(2004)
Science
, vol.306
, pp. 636-640
-
-
-
60
-
-
58149229162
-
An in vitro microfluidic approach to generating protein-interaction networks
-
Gerber, D., Maerkl, S.J. and Quake, S.R. (2008) An in vitro microfluidic approach to generating protein-interaction networks. Nat. Methods, 6, 71-74.
-
(2008)
Nat. Methods
, vol.6
, pp. 71-74
-
-
Gerber, D.1
Maerkl, S.J.2
Quake, S.R.3
-
61
-
-
0037131390
-
Microfluidic large-scale integration
-
Thorsen, T., Maerkl, S.J. and Quake, S.R. (2002) Microfluidic large-scale integration. Science, 298, 580-584.
-
(2002)
Science
, vol.298
, pp. 580-584
-
-
Thorsen, T.1
Maerkl, S.J.2
Quake, S.R.3
-
62
-
-
84899799231
-
A comparative analysis of transcription factor binding models learned from PBM, HT-SELEX and ChIP data
-
Orenstein, Y. and Shamir, R. (2014) A comparative analysis of transcription factor binding models learned from PBM, HT-SELEX and ChIP data. Nucleic Acids Res., 42, 1-10.
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. 1-10
-
-
Orenstein, Y.1
Shamir, R.2
-
63
-
-
84879971887
-
RAP: Accurate and fast motif finding based on protein-binding microarray data
-
Orenstein, Y., Mick, E. and Shamir, R. (2013) RAP: accurate and fast motif finding based on protein-binding microarray data. J. Comput. Biol., 20, 375-382.
-
(2013)
J. Comput. Biol.
, vol.20
, pp. 375-382
-
-
Orenstein, Y.1
Mick, E.2
Shamir, R.3
-
64
-
-
84906935775
-
Absence of a simple code: How transcription factors read the genome
-
Slattery, M., Zhou, T., Yang, L., Machado, A.C.D., Gord?an, R. and Rohs, R. (2014) Absence of a simple code: how transcription factors read the genome. Trends Biochem. Sci., 39, 381-399.
-
(2014)
Trends Biochem. Sci.
, vol.39
, pp. 381-399
-
-
Slattery, M.1
Zhou, T.2
Yang, L.3
Machado, A.C.D.4
Gordan, R.5
Rohs, R.6
-
65
-
-
84937031367
-
Unraveling determinants of transcription factor binding outside the core binding site
-
Levo, M., Zalckvar, E., Sharon, E., Carolina, A., Machado, D., Kalma, Y., Lotam-pompan, M., Weinberger, A., Yakhini, Z., Rohs, R., et al. (2015) Unraveling determinants of transcription factor binding outside the core binding site.Genome Res., 25, 1018-1029.
-
(2015)
Genome Res.
, vol.25
, pp. 1018-1029
-
-
Levo, M.1
Zalckvar, E.2
Sharon, E.3
Carolina, A.4
Machado, D.5
Kalma, Y.6
Lotam-Pompan, M.7
Weinberger, A.8
Yakhini, Z.9
Rohs, R.10
-
66
-
-
0038750887
-
Manual 768 or 384 well microplate gel 'dry' electrophoresis for PCR checking and SNP genotyping
-
48e-48
-
Gaunt, T.R., Hinks, L.J., Rassoulian, H. and Day, I.N.M. (2003) Manual 768 or 384 well microplate gel 'dry' electrophoresis for PCR checking and SNP genotyping. Nucleic Acids Res., 31, 48e-48.
-
(2003)
Nucleic Acids Res.
, vol.31
-
-
Gaunt, T.R.1
Hinks, L.J.2
Rassoulian, H.3
Day, I.N.M.4
-
67
-
-
33747117373
-
The origins and the future of microfluidics
-
Whitesides, G.M. (2006) The origins and the future of microfluidics. Nature, 442, 368-373.
-
(2006)
Nature
, vol.442
, pp. 368-373
-
-
Whitesides, G.M.1
-
68
-
-
0035298821
-
Concentration and separation of proteins in microfluidic channels on the basis of transverse IEF
-
Macounova, K., Cabrera, C.R. and Yager, P. (2001) Concentration and separation of proteins in microfluidic channels on the basis of transverse IEF. Anal. Chem., 73, 1627-1633.
-
(2001)
Anal. Chem.
, vol.73
, pp. 1627-1633
-
-
Macounova, K.1
Cabrera, C.R.2
Yager, P.3
-
69
-
-
84856415994
-
On-line sample pre-concentration in microfluidic devices: A review
-
Giordano, B.C., Burgi, D.S., Hart, S.J. and Terray, A. (2012) On-line sample pre-concentration in microfluidic devices: A review. Anal. Chim. Acta, 718, 11-24.
-
(2012)
Anal. Chim. Acta
, vol.718
, pp. 11-24
-
-
Giordano, B.C.1
Burgi, D.S.2
Hart, S.J.3
Terray, A.4
|