-
2
-
-
0018199224
-
DNAse footprinting: A simple method for the detection of protein-DNA binding specificity
-
Galas, D.J., & Schmitz, A. DNAse footprinting: a simple method for the detection of protein-DNA binding specificity. Nucleic Acids Res. 5, 3157-3170 (1978
-
(1978)
Nucleic Acids Res
, vol.5
, pp. 3157-3170
-
-
Galas, D.J.1
Schmitz, A.2
-
3
-
-
0021951563
-
Cell-Type-specific contacts to immunoglobulin enhancers in nuclei
-
Church, G.M., Ephrussi, A., Gilbert, W., & Tonegawa, S. Cell-Type-specific contacts to immunoglobulin enhancers in nuclei. Nature 313, 798-801 (1985
-
(1985)
Nature
, vol.313
, pp. 798-801
-
-
Church, G.M.1
Ephrussi, A.2
Gilbert, W.3
Tonegawa, S.4
-
4
-
-
0021796707
-
A method for mapping intranuclear protein-DNA interactions and its application to a nuclease hypersensitive site
-
Jackson, P.D., & Felsenfeld, G. A method for mapping intranuclear protein-DNA interactions and its application to a nuclease hypersensitive site. Proc. Natl. Acad. Sci. USA 82, 2296-2300 (1985
-
(1985)
Proc. Natl. Acad. Sci. USA
, vol.82
, pp. 2296-2300
-
-
Jackson, P.D.1
Felsenfeld, G.2
-
5
-
-
0022542943
-
Detection of factors that interact with the human beta-interferon regulatory region in vivo by DNAase i footprinting
-
Zinn, K., & Maniatis, T. Detection of factors that interact with the human beta-interferon regulatory region in vivo by DNAase I footprinting. Cell 45, 611-618 (1986
-
(1986)
Cell
, vol.45
, pp. 611-618
-
-
Zinn, K.1
Maniatis, T.2
-
6
-
-
0021928806
-
B lineage-specific interactions of an immunoglobulin enhancer with cellular factors in vivo
-
Ephrussi, A., Church, G.M., Tonegawa, S., & Gilbert, W. B lineage-specific interactions of an immunoglobulin enhancer with cellular factors in vivo. Science 227, 134-140 (1985
-
(1985)
Science
, vol.227
, pp. 134-140
-
-
Ephrussi, A.1
Church, G.M.2
Tonegawa, S.3
Gilbert, W.4
-
7
-
-
0023646729
-
Genomic footprinting reveals cell type-specific DNA binding of ubiquitous factors
-
Becker, P.B., Ruppert, S., & Schütz, G. Genomic footprinting reveals cell type-specific DNA binding of ubiquitous factors. Cell 51, 435-443 (1987
-
(1987)
Cell
, vol.51
, pp. 435-443
-
-
Becker, P.B.1
Ruppert, S.2
Schütz, G.3
-
8
-
-
63849308888
-
Global mapping of protein-DNA interactions in vivo by digital genomic footprinting
-
Hesselberth, J.R., et al. Global mapping of protein-DNA interactions in vivo by digital genomic footprinting. Nat. Methods 6, 283-289 (2009
-
(2009)
Nat. Methods
, vol.6
, pp. 283-289
-
-
Hesselberth, J.R.1
-
9
-
-
79952267284
-
High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells
-
Boyle, A.P., et al. High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells. Genome Res. 21, 456-464 (2011
-
(2011)
Genome Res
, vol.21
, pp. 456-464
-
-
Boyle, A.P.1
-
10
-
-
84865708757
-
An expansive human regulatory lexicon encoded in transcription factor footprints
-
Neph, S., et al. An expansive human regulatory lexicon encoded in transcription factor footprints. Nature 489, 83-90 (2012
-
(2012)
Nature
, vol.489
, pp. 83-90
-
-
Neph, S.1
-
11
-
-
84907381991
-
Mapping and dynamics of regulatory DNA and transcription factor networks in A thaliana
-
Sullivan, A.M., et al. Mapping and dynamics of regulatory DNA and transcription factor networks in A. thaliana. Cell Rep. 8, 2015-2030 (2014
-
(2014)
Cell Rep
, vol.8
, pp. 2015-2030
-
-
Sullivan, A.M.1
-
12
-
-
84911470871
-
Conservation of trans-Acting circuitry during mammalian regulatory evolution
-
Stergachis, A.B., et al. Conservation of trans-Acting circuitry during mammalian regulatory evolution. Nature 515, 365-370 (2014
-
(2014)
Nature
, vol.515
, pp. 365-370
-
-
Stergachis, A.B.1
-
13
-
-
84866361701
-
Circuitry and dynamics of human transcription factor regulatory networks
-
Neph, S., et al. Circuitry and dynamics of human transcription factor regulatory networks. Cell 150, 1274-1286 (2012
-
(2012)
Cell
, vol.150
, pp. 1274-1286
-
-
Neph, S.1
-
14
-
-
0035499607
-
The invention of footprinting
-
Galas, D.J. The invention of footprinting. Trends Biochem. Sci. 26, 690-693 (2001
-
(2001)
Trends Biochem. Sci
, vol.26
, pp. 690-693
-
-
Galas, D.J.1
-
15
-
-
0023899769
-
Nuclease hypersensitive sites in chromatin
-
Gross, D.S., & Garrard, W.T. Nuclease hypersensitive sites in chromatin. Annu. Rev. Biochem. 57, 159-197 (1988
-
(1988)
Annu. Rev. Biochem
, vol.57
, pp. 159-197
-
-
Gross, D.S.1
Garrard, W.T.2
-
16
-
-
0024554911
-
Physical studies of protein-DNA complexes by footprinting
-
Tullius, T.D. Physical studies of protein-DNA complexes by footprinting. Annu. Rev. Biophys. Biophys. Chem. 18, 213-237 (1989
-
(1989)
Annu. Rev. Biophys. Biophys. Chem
, vol.18
, pp. 213-237
-
-
Tullius, T.D.1
-
17
-
-
34247492103
-
Footprinting: A method for determining the sequence selectivity, affinity and kinetics of DNA-binding ligands
-
Hampshire, A.J., Rusling, D.A., Broughton-Head, V.J., & Fox, K.R. Footprinting: a method for determining the sequence selectivity, affinity and kinetics of DNA-binding ligands. Methods 42, 128-140 (2007
-
(2007)
Methods
, vol.42
, pp. 128-140
-
-
Hampshire, A.J.1
Rusling, D.A.2
Broughton-Head, V.J.3
Fox, K.R.4
-
18
-
-
0014409840
-
Enzymatic breakage and joining of deoxyribonucleic acid v End group labeling and analysis of deoxyribonucleic acid containing single stranded breaks
-
Weiss, B., Live, T.R., & Richardson, C.C. Enzymatic breakage and joining of deoxyribonucleic acid. V. End group labeling and analysis of deoxyribonucleic acid containing single stranded breaks. J. Biol. Chem. 243, 4530-4542 (1968
-
(1968)
J. Biol. Chem
, Issue.243
, pp. 4530-4542
-
-
Weiss, B.1
Live, T.R.2
Richardson, C.C.3
-
19
-
-
0015722855
-
The specificity of pancreatic deoxyribonuclease
-
Ehrlich, S.D., Bertazzoni, U., & Bernardi, G. The specificity of pancreatic deoxyribonuclease. Eur. J. Biochem. 40, 143-147 (1973
-
(1973)
Eur. J. Biochem
, vol.40
, pp. 143-147
-
-
Ehrlich, S.D.1
Bertazzoni, U.2
Bernardi, G.3
-
20
-
-
0019888109
-
High sequence specificity of micrococcal nuclease
-
Dingwall, C., Lomonossoff, G.P., & Laskey, R.A. High sequence specificity of micrococcal nuclease. Nucleic Acids Res. 9, 2659-2673 (1981
-
(1981)
Nucleic Acids Res
, vol.9
, pp. 2659-2673
-
-
Dingwall, C.1
Lomonossoff, G.P.2
Laskey, R.A.3
-
21
-
-
84876245094
-
Probing DNA shape and methylation state on a genomic scale with DNase i
-
Lazarovici, A., et al. Probing DNA shape and methylation state on a genomic scale with DNase I. Proc. Natl. Acad. Sci. USA 110, 6376-6381 (2013
-
(2013)
Proc. Natl. Acad. Sci. USA
, vol.110
, pp. 6376-6381
-
-
Lazarovici, A.1
-
22
-
-
84888877924
-
Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin DNA-binding proteins and nucleosome position
-
Buenrostro, J.D., Giresi, P.G., Zaba, L.C., Chang, H.Y., & Greenleaf, W.J. Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position. Nat. Methods 10, 1213-1218 (2013
-
(2013)
Nat. Methods
, vol.10
, pp. 1213-1218
-
-
Buenrostro, J.D.1
Giresi, P.G.2
Zaba, L.C.3
Chang, H.Y.4
Greenleaf, W.J.5
-
23
-
-
78649773164
-
Rapid, low-input, low-bias construction of shotgun fragment libraries by high-density in vitro transposition
-
Adey, A., et al. Rapid, low-input, low-bias construction of shotgun fragment libraries by high-density in vitro transposition. Genome Biol. 11, R119 (2010
-
(2010)
Genome Biol
, vol.11
, pp. R119
-
-
Adey, A.1
-
24
-
-
0007208716
-
Interactions between DNA-bound repressors govern regulation by the lambda phage repressor
-
Johnson, A.D., Meyer, B.J., & Ptashne, M. Interactions between DNA-bound repressors govern regulation by the lambda phage repressor. Proc. Natl. Acad. Sci. USA 76, 5061-5065 (1979
-
(1979)
Proc. Natl. Acad. Sci. USA
, vol.76
, pp. 5061-5065
-
-
Johnson, A.D.1
Meyer, B.J.2
Ptashne, M.3
-
25
-
-
0021087686
-
Sequence-specific binding of glucocorticoid receptor to MTV DNA at sites within and upstream of the transcribed region
-
Payvar, F., et al. Sequence-specific binding of glucocorticoid receptor to MTV DNA at sites within and upstream of the transcribed region. Cell 35, 381-392 (1983
-
(1983)
Cell
, vol.35
, pp. 381-392
-
-
Payvar, F.1
-
26
-
-
0021058853
-
The promoter-specific transcription factor Sp1 binds to upstream sequences in the SV40 early promoter
-
Dynan, W.S., & Tjian, R. The promoter-specific transcription factor Sp1 binds to upstream sequences in the SV40 early promoter. Cell 35, 79-87 (1983
-
(1983)
Cell
, vol.35
, pp. 79-87
-
-
Dynan, W.S.1
Tjian, R.2
-
28
-
-
0024431684
-
In vivo footprinting of a muscle specific enhancer by ligation mediated PCR
-
Mueller, P.R., & Wold, B. In vivo footprinting of a muscle specific enhancer by ligation mediated PCR. Science 246, 780-786 (1989
-
(1989)
Science
, vol.246
, pp. 780-786
-
-
Mueller, P.R.1
Wold, B.2
-
29
-
-
0032619953
-
Mapping protein-DNA interactions using in vivo footprinting
-
Warshawsky, D., & Miller, L. Mapping protein-DNA interactions using in vivo footprinting. Methods Mol. Biol. 127, 199-212 (1999
-
(1999)
Methods Mol. Biol
, vol.127
, pp. 199-212
-
-
Warshawsky, D.1
Miller, L.2
-
30
-
-
0026447731
-
X-ray structure of the DNase I-d(GGTATACC)2 complex at 2.3 A resolution
-
Weston, S.A., Lahm, A., & Suck, D. X-ray structure of the DNase I-d(GGTATACC)2 complex at 2.3 A resolution. J. Mol. Biol. 226, 1237-1256 (1992
-
(1992)
J. Mol. Biol
, vol.226
, pp. 1237-1256
-
-
Weston, S.A.1
Lahm, A.2
Suck, D.3
-
31
-
-
0021140818
-
DNA structural variations in the E coli tyrT promoter
-
Drew, H.R., & Travers, A.A. DNA structural variations in the E. coli tyrT promoter. Cell 37, 491-502 (1984
-
(1984)
Cell
, vol.37
, pp. 491-502
-
-
Drew, H.R.1
Travers, A.A.2
-
32
-
-
0014409822
-
Deoxyribonucleic acid nucleases II the effects of metals on the mechanism of action of deoxyribonuclease i
-
Melgar, E., & Goldthwait, D.A. Deoxyribonucleic acid nucleases. II. The effects of metals on the mechanism of action of deoxyribonuclease I. J. Biol. Chem. 243, 4409-4416 (1968
-
(1968)
J. Biol. Chem
, vol.243
, pp. 4409-4416
-
-
Melgar, E.1
Goldthwait, D.A.2
-
33
-
-
0019332501
-
The effect of divalent cations on the mode of action of DNase i the initial reaction products produced from covalently closed circular DNA
-
Campbell, V.W., & Jackson, D.A. The effect of divalent cations on the mode of action of DNase I. The initial reaction products produced from covalently closed circular DNA. J. Biol. Chem. 255, 3726-3735 (1980
-
(1980)
J. Biol. Chem
, vol.255
, pp. 3726-3735
-
-
Campbell, V.W.1
Jackson, D.A.2
-
34
-
-
0018311433
-
Precise location of DNase i cutting sites in the nucleosome core determined by high resolution gel electrophoresis
-
Lutter, L.C. Precise location of DNase I cutting sites in the nucleosome core determined by high resolution gel electrophoresis. Nucleic Acids Res. 6, 41-56 (1979
-
(1979)
Nucleic Acids Res
, vol.6
, pp. 41-56
-
-
Lutter, L.C.1
-
35
-
-
0018976521
-
Helical periodicity of DNA determined by enzyme digestion
-
Rhodes, D., & Klug, A. Helical periodicity of DNA determined by enzyme digestion. Nature 286, 573-578 (1980
-
(1980)
Nature
, vol.286
, pp. 573-578
-
-
Rhodes, D.1
Klug, A.2
-
36
-
-
0028853170
-
NF-E2 and GATA binding motifs are required for the formation of DNase i hypersensitive site 4 of the human beta-globin locus control region
-
Stamatoyannopoulos, J.A., Goodwin, A., Joyce, T., & Lowrey, C.H. NF-E2 and GATA binding motifs are required for the formation of DNase I hypersensitive site 4 of the human beta-globin locus control region. EMBO J. 14, 106-116 (1995
-
(1995)
EMBO J.
, vol.14
, pp. 106-116
-
-
Stamatoyannopoulos, J.A.1
Goodwin, A.2
Joyce, T.3
Lowrey, C.H.4
-
37
-
-
7444241154
-
-
Cold Spring Harbor Laboratory Press
-
Ptashne, M. A Genetic Switch (Cold Spring Harbor Laboratory Press, 2004
-
(2004)
A Genetic Switch
-
-
Ptashne, M.1
-
38
-
-
0031309106
-
Quantitative DNA footprinting
-
Dabrowiak, J.C., Goodisman, J., & Ward, B. Quantitative DNA footprinting. Methods Mol. Biol. 90, 23-42 (1997
-
(1997)
Methods Mol. Biol
, vol.90
, pp. 23-42
-
-
Dabrowiak, J.C.1
Goodisman, J.2
Ward, B.3
-
39
-
-
0028360777
-
Hox proteins have different affinities for a consensus DNA site that correlate with the positions of their genes on the hox cluster
-
Pellerin, I., Schnabel, C., Catron, K.M., & Abate, C. Hox proteins have different affinities for a consensus DNA site that correlate with the positions of their genes on the hox cluster. Mol. Cell. Biol. 14, 4532-4545 (1994
-
(1994)
Mol. Cell. Biol
, vol.14
, pp. 4532-4545
-
-
Pellerin, I.1
Schnabel, C.2
Catron, K.M.3
Abate, C.4
-
40
-
-
36348985646
-
Critical DNA binding interactions of the insulator protein CTCF: A small number of zinc fingers mediate strong binding, and a single finger-DNA interaction controls binding at imprinted loci
-
Renda, M., et al. Critical DNA binding interactions of the insulator protein CTCF: a small number of zinc fingers mediate strong binding, and a single finger-DNA interaction controls binding at imprinted loci. J. Biol. Chem. 282, 33336-33345 (2007
-
(2007)
J. Biol. Chem
, vol.282
, pp. 33336-33345
-
-
Renda, M.1
-
41
-
-
44949209779
-
DNase I-DNA interaction alters DNA and protein conformations
-
Nsoukpoé-Kossi, C.N., Diamantoglou, S., & Tajmir-Riahi, H.A. DNase I-DNA interaction alters DNA and protein conformations. Biochem. Cell Biol. 86, 244-250 (2008
-
(2008)
Biochem. Cell Biol
, vol.86
, pp. 244-250
-
-
Nsoukpoé-Kossi, C.N.1
Diamantoglou, S.2
Tajmir-Riahi, H.A.3
-
42
-
-
84880920116
-
Eukaryotic transcriptional dynamics: From single molecules to cell populations
-
Coulon, A., Chow, C.C., Singer, R.H., & Larson, D.R. Eukaryotic transcriptional dynamics: from single molecules to cell populations. Nat. Rev. Genet. 14, 572-584 (2013
-
(2013)
Nat. Rev. Genet
, vol.14
, pp. 572-584
-
-
Coulon, A.1
Chow, C.C.2
Singer, R.H.3
Larson, D.R.4
-
43
-
-
79952184341
-
Chromatin accessibility pre-determines glucocorticoid receptor binding patterns
-
John, S., et al. Chromatin accessibility pre-determines glucocorticoid receptor binding patterns. Nat. Genet. 43, 264-268 (2011
-
(2011)
Nat. Genet
, vol.43
, pp. 264-268
-
-
John, S.1
-
44
-
-
79952266465
-
Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data
-
Pique-Regi, R., et al. Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data. Genome Res. 21, 447-455 (2011
-
(2011)
Genome Res
, vol.21
, pp. 447-455
-
-
Pique-Regi, R.1
-
45
-
-
84893863046
-
Discovery of directional and nondirectional pioneer transcription factors by modeling DNase profile magnitude and shape
-
Sherwood, R.I., et al. Discovery of directional and nondirectional pioneer transcription factors by modeling DNase profile magnitude and shape. Nat. Biotechnol. 32, 171-178 (2014
-
(2014)
Nat. Biotechnol
, vol.32
, pp. 171-178
-
-
Sherwood, R.I.1
-
46
-
-
84902355423
-
Molecular architecture of transcription factor hotspots in early adipogenesis
-
Siersbæk, R., et al. Molecular architecture of transcription factor hotspots in early adipogenesis. Cell Rep. 7, 1434-1442 (2014
-
(2014)
Cell Rep
, vol.7
, pp. 1434-1442
-
-
Siersbæk, R.1
-
47
-
-
84894613651
-
Refined DNase-seq protocol and data analysis reveals intrinsic bias in transcription factor footprint identification
-
He, H.H., et al. Refined DNase-seq protocol and data analysis reveals intrinsic bias in transcription factor footprint identification. Nat. Methods 11, 73-78 (2014
-
(2014)
Nat. Methods
, vol.11
, pp. 73-78
-
-
He, H.H.1
-
48
-
-
84922589001
-
DNase footprint signatures are dictated by factor dynamics and DNA sequence
-
Sung, M.-H., Guertin, M.J., Baek, S., & Hager, G.L. DNase footprint signatures are dictated by factor dynamics and DNA sequence. Mol. Cell 56, 275-285 (2014
-
(2014)
Mol. Cell
, vol.56
, pp. 275-285
-
-
Sung, M.-H.1
Guertin, M.J.2
Baek, S.3
Hager, G.L.4
-
49
-
-
84865755978
-
The accessible chromatin landscape of the human genome
-
Thurman, R.E., et al. The accessible chromatin landscape of the human genome. Nature 489, 75-82 (2012
-
(2012)
Nature
, vol.489
, pp. 75-82
-
-
Thurman, R.E.1
-
50
-
-
33745416080
-
Genome-scale mapping of DNase i sensitivity in vivo using tiling DNA microarrays
-
Sabo, P.J., et al. Genome-scale mapping of DNase I sensitivity in vivo using tiling DNA microarrays. Nat. Methods 3, 511-518 (2006
-
(2006)
Nat. Methods
, vol.3
, pp. 511-518
-
-
Sabo, P.J.1
-
51
-
-
84894651254
-
Coupling transcription factor occupancy to nucleosome architecture with DNase-FLASH
-
Vierstra, J., Wang, H., John, S., Sandstrom, R., & Stamatoyannopoulos, J.A. Coupling transcription factor occupancy to nucleosome architecture with DNase-FLASH. Nat. Methods 11, 66-72 (2014
-
(2014)
Nat. Methods
, vol.11
, pp. 66-72
-
-
Vierstra, J.1
Wang, H.2
John, S.3
Sandstrom, R.4
Stamatoyannopoulos, J.A.5
-
52
-
-
84923362619
-
Integrative analysis of 111 reference human epigenomes
-
Roadmap Epigenomics Consortium et al.
-
Roadmap Epigenomics Consortium., et al. Integrative analysis of 111 reference human epigenomes. Nature 518, 317-330 (2015
-
(2015)
Nature
, vol.518
, pp. 317-330
-
-
-
53
-
-
84940734145
-
A discriminatory approach for transcription factor binding prediction using DNase i hypersensitivity data
-
Kähärä, J., & Lähdesmäki, H. BinDNase: a discriminatory approach for transcription factor binding prediction using DNase I hypersensitivity data. Bioinformatics 31, 2852-2859 (2015
-
(2015)
Bioinformatics
, vol.31
, pp. 2852-2859
-
-
Kähärä, J.1
BinDNase, L.H.2
-
54
-
-
84856484968
-
Counting absolute numbers of molecules using unique molecular identifiers
-
Kivioja, T., et al. Counting absolute numbers of molecules using unique molecular identifiers. Nat. Methods 9, 72-74 (2012
-
(2012)
Nat. Methods
, vol.9
, pp. 72-74
-
-
Kivioja, T.1
-
55
-
-
84890079901
-
Wellington: A novel method for the accurate identification of digital genomic footprints from DNase-seq data
-
Piper, J., et al. Wellington: a novel method for the accurate identification of digital genomic footprints from DNase-seq data. Nucleic Acids Res. 41, e201 (2013
-
(2013)
Nucleic Acids Res
, vol.41
, pp. e201
-
-
Piper, J.1
-
56
-
-
84911364111
-
Detection of active transcription factor binding sites with the combination of DNase hypersensitivity and histone modifications
-
Gusmao, E.G., Dieterich, C., Zenke, M., & Costa, I.G. Detection of active transcription factor binding sites with the combination of DNase hypersensitivity and histone modifications. Bioinformatics 30, 3143-3151 (2014
-
(2014)
Bioinformatics
, vol.30
, pp. 3143-3151
-
-
Gusmao, E.G.1
Dieterich, C.2
Zenke, M.3
Costa, I.G.4
-
57
-
-
77954199175
-
A dynamic Bayesian network for identifying protein-binding footprints from single molecule-based sequencing data
-
Chen, X., Hoffman, M.M., Bilmes, J.A., Hesselberth, J.R., & Noble, W.S. A dynamic Bayesian network for identifying protein-binding footprints from single molecule-based sequencing data. Bioinformatics 26, i334-i342 (2010
-
(2010)
Bioinformatics
, vol.26
, pp. i334-i342
-
-
Chen, X.1
Hoffman, M.M.2
Bilmes, J.A.3
Hesselberth, J.R.4
Noble, W.S.5
-
58
-
-
79953300078
-
Scanning for occurrences of a given motif
-
Grant, C.E., Bailey, T.L., & Noble, W.S. FIMO: scanning for occurrences of a given motif. Bioinformatics 27, 1017-1018 (2011
-
(2011)
Bioinformatics
, vol.27
, pp. 1017-1018
-
-
Grant, C.E.1
Bailey, T.L.2
Fimo, S.N.W.3
-
59
-
-
84925283402
-
Explicit DNase sequence bias modeling enables high-resolution transcription factor footprint detection
-
Frank, C.L., Crawford, G.E., & Ohler, U. Explicit DNase sequence bias modeling enables high-resolution transcription factor footprint detection. Nucleic Acids Res. 42, 11865-11878 (2014
-
(2014)
Nucleic Acids Res
, vol.42
, pp. 11865-11878
-
-
Frank, C.L.1
Crawford, G.E.2
Ohler, U.3
-
60
-
-
84887478181
-
Highly expressed loci are vulnerable to misleading ChIP localization of multiple unrelated proteins
-
Teytelman, L., Thurtle, D.M., Rine, J., & van Oudenaarden, A. Highly expressed loci are vulnerable to misleading ChIP localization of multiple unrelated proteins. Proc. Natl. Acad. Sci. USA 110, 18602-18607 (2013
-
(2013)
Proc. Natl. Acad. Sci. USA
, vol.110
, pp. 18602-18607
-
-
Teytelman, L.1
Thurtle, D.M.2
Rine, J.3
Van Oudenaarden, A.4
-
61
-
-
84859582058
-
Genome-wide protein-DNA binding dynamics suggest a molecular clutch for transcription factor function
-
Lickwar, C.R., Mueller, F., Hanlon, S.E., McNally, J.G., & Lieb, J.D. Genome-wide protein-DNA binding dynamics suggest a molecular clutch for transcription factor function. Nature 484, 251-255 (2012
-
(2012)
Nature
, vol.484
, pp. 251-255
-
-
Lickwar, C.R.1
Mueller, F.2
Hanlon, S.E.3
McNally, J.G.4
Lieb, J.D.5
-
62
-
-
84880838145
-
Chromatin accessibility data sets show bias due to sequence specificity of the DNase i enzyme
-
Koohy, H., Down, T.A., & Hubbard, T.J. Chromatin accessibility data sets show bias due to sequence specificity of the DNase I enzyme. PLoS One 8, e69853 (2013
-
(2013)
PLoS One
, vol.8
, pp. e69853
-
-
Koohy, H.1
Down, T.A.2
Hubbard, T.J.3
-
63
-
-
84897406933
-
Universal count correction for high-Throughput sequencing
-
Hashimoto, T.B., Edwards, M.D., & Gifford, D.K. Universal count correction for high-Throughput sequencing. PLoS Comput. Biol. 10, e1003494 (2014
-
(2014)
PLoS Comput. Biol
, vol.10
, pp. e1003494
-
-
Hashimoto, T.B.1
Edwards, M.D.2
Gifford, D.K.3
-
64
-
-
84872540994
-
DNA-binding specificities of human transcription factors
-
Jolma, A., et al. DNA-binding specificities of human transcription factors. Cell 152, 327-339 (2013
-
(2013)
Cell
, vol.152
, pp. 327-339
-
-
Jolma, A.1
-
65
-
-
84947717868
-
DNA-dependent formation of transcription factor pairs alters their binding specificity
-
Jolma, A., et al. DNA-dependent formation of transcription factor pairs alters their binding specificity. Nature 527, 384-388 (2015
-
(2015)
Nature
, vol.527
, pp. 384-388
-
-
Jolma, A.1
-
66
-
-
84891469243
-
Using DNase digestion data to accurately identify transcription factor binding sites
-
Luo, K., & Hartemink, A.J. Using DNase digestion data to accurately identify transcription factor binding sites. Pac. Symp. Biocomput. 2013, 80-91 (2013
-
(2013)
Pac. Symp. Biocomput
, vol.2013
, pp. 80-91
-
-
Luo, K.1
Hartemink, A.J.2
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