-
1
-
-
0023948705
-
Mapping protein-DNA interactions in vivo with formaldehyde: Evidence that histone H4 is retained on a highly transcribed gene
-
Solomon MJ, Larsen PL, Varshavsky A. Mapping protein-DNA interactions in vivo with formaldehyde: Evidence that histone H4 is retained on a highly transcribed gene. Cell 1988;53:937-47.
-
(1988)
Cell
, vol.53
, pp. 937-947
-
-
Solomon, M.J.1
Larsen, P.L.2
Varshavsky, A.3
-
2
-
-
0029817763
-
Spreading of transcriptional repressor SIR3 from telomeric heterochromatin
-
Hecht A, Strahl-Bolsinger S, Grunstein M. Spreading of transcriptional repressor SIR3 from telomeric heterochromatin. Nature 1996;383 92-96.
-
(1996)
Nature
, vol.383
, pp. 92-96
-
-
Hecht, A.1
Strahl-Bolsinger, S.2
Grunstein, M.3
-
3
-
-
0034704248
-
Genome-wide location and function of DNA binding proteins
-
Ren B, Robert F, Wyrick JJ, et al. Genome-wide location and function of DNA binding proteins. Science 2000;290: 2306-09.
-
(2000)
Science
, vol.290
, pp. 2306-2309
-
-
Ren, B.1
Robert, F.2
Wyrick, J.J.3
-
4
-
-
0035945567
-
Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF
-
Iyer VR, Horak CE, Scafe CS, et al. Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF. Nature 2001; 409:533-8.
-
(2001)
Nature
, vol.409
, pp. 533-538
-
-
Iyer, V.R.1
Horak, C.E.2
Scafe, C.S.3
-
5
-
-
4544352942
-
Transcriptional regulatory code of a eukaryotic genome
-
Harbison CT, Gordon DB, Lee TI, et al. Transcriptional regulatory code of a eukaryotic genome. Nature 2004;431: 99-104.
-
(2004)
Nature
, vol.431
, pp. 99-104
-
-
Harbison, C.T.1
Gordon, D.B.2
Lee, T.I.3
-
6
-
-
17944372930
-
Serial regulation of transcriptional regulators in the yeast cell cycle
-
Simon I, Barnett J, Hannett N, et al. Serial regulation of transcriptional regulators in the yeast cell cycle. Cell 2001; 106:697-708.
-
(2001)
Cell
, vol.106
, pp. 697-708
-
-
Simon, I.1
Barnett, J.2
Hannett, N.3
-
7
-
-
19344366459
-
Genome-wide mapping of the cohesin complex in the yeast Saccharomyces cerevisiae
-
Glynn EF, Megee PC, Yu HG, et al. Genome-wide mapping of the cohesin complex in the yeast Saccharomyces cerevisiae. PLoS Biol 2004;2:E259.
-
(2004)
PLoS Biol
, vol.2
-
-
Glynn, E.F.1
Megee, P.C.2
Yu, H.G.3
-
8
-
-
2642570305
-
The histone modification pattern of active genes revealed through genome-wide chromatin analysis of a higher eukaryote
-
Schubeler D, MacAlpine DM, Scalzo D, et al. The histone modification pattern of active genes revealed through genome-wide chromatin analysis of a higher eukaryote. Genes Dev 2004;18 1263-71.
-
(2004)
Genes Dev
, vol.18
, pp. 1263-1271
-
-
Schubeler, D.1
MacAlpine, D.M.2
Scalzo, D.3
-
9
-
-
26444508841
-
Single-nucleosome mapping of histone modifications in S. cerevisiae
-
Liu CL, Kaplan T, Kim M, et al. Single-nucleosome mapping of histone modifications in S. cerevisiae. PLoS Biol 2005;3 e328.
-
(2005)
PLoS Biol
, vol.3
-
-
Liu, C.L.1
Kaplan, T.2
Kim, M.3
-
10
-
-
26844511498
-
Histone variant H2A.Z marks the 5′ ends of both active and inactive genes in euchromatin
-
Raisner RM, Hartley PD, Meneghini MD, et al. Histone variant H2A.Z marks the 5′ ends of both active and inactive genes in euchromatin. Cell 2005;123:233-248.
-
(2005)
Cell
, vol.123
, pp. 233-248
-
-
Raisner, R.M.1
Hartley, P.D.2
Meneghini, M.D.3
-
11
-
-
34249989400
-
Spreading of mammalian DNA-damage response factors studied by ChIP-chip at damaged telomeres
-
Meier A, Fiegler H, Munoz P, et al. Spreading of mammalian DNA-damage response factors studied by ChIP-chip at damaged telomeres. Embo J 2007;26:2707-18.
-
(2007)
Embo J
, vol.26
, pp. 2707-2718
-
-
Meier, A.1
Fiegler, H.2
Munoz, P.3
-
12
-
-
33749117367
-
Zebrafish promoter microarrays identify actively transcribed embryonic genes
-
Wardle FC, Odom DT, Bell GW, et al. Zebrafish promoter microarrays identify actively transcribed embryonic genes. Genome Biol 2006; 7:R71.
-
(2006)
Genome Biol
, vol.7
-
-
Wardle, F.C.1
Odom, D.T.2
Bell, G.W.3
-
13
-
-
33847284814
-
X chromosome repression by localization of the C. elegans dosage compensation machinery to sites of transcription initiation
-
Ercan S, Giresi PG, Whittle CM, et al. X chromosome repression by localization of the C. elegans dosage compensation machinery to sites of transcription initiation. Nat Genet 2007;39:403-8.
-
(2007)
Nat Genet
, vol.39
, pp. 403-408
-
-
Ercan, S.1
Giresi, P.G.2
Whittle, C.M.3
-
14
-
-
28844475890
-
Genomic analysis of heat-shock factor targets in Drosophila
-
Birch-Machin I, Gao S, Huen D, et al. Genomic analysis of heat-shock factor targets in Drosophila. Genome Biol 2005;6: R63.
-
(2005)
Genome Biol
, vol.6
-
-
Birch-Machin, I.1
Gao, S.2
Huen, D.3
-
15
-
-
33847189172
-
Whole-genome ChIP-chip analysis of Dorsal, Twist, and Snail suggests integration of diverse patterning processes in the Drosophila embryo
-
Zeitlinger J, Zinzen RP, Stark A, et al. Whole-genome ChIP-chip analysis of Dorsal, Twist, and Snail suggests integration of diverse patterning processes in the Drosophila embryo. Genes Dev 2007; 21: 385-90.
-
(2007)
Genes Dev
, vol.21
, pp. 385-390
-
-
Zeitlinger, J.1
Zinzen, R.P.2
Stark, A.3
-
16
-
-
34249818182
-
Tissue-specific transcriptional regulation has diverged significantly between human and mouse
-
Odom DT, Dowell RD, Jacobsen ES, et al. Tissue-specific transcriptional regulation has diverged significantly between human and mouse. Nat Genet 2007;39:730-2.
-
(2007)
Nat Genet
, vol.39
, pp. 730-732
-
-
Odom, D.T.1
Dowell, R.D.2
Jacobsen, E.S.3
-
17
-
-
33745068992
-
Development of Arabidopsis whole-genome microarrays and their application to the discovery of binding sites for the TGA2 transcription factor in salicylic acid-treated plants
-
Thibaud-Nissen F, Wu H, Richmond T, et al. Development of Arabidopsis whole-genome microarrays and their application to the discovery of binding sites for the TGA2 transcription factor in salicylic acid-treated plants. Plant J 2006;47:152-62.
-
(2006)
Plant J
, vol.47
, pp. 152-162
-
-
Thibaud-Nissen, F.1
Wu, H.2
Richmond, T.3
-
18
-
-
0034007256
-
Identification of in vivo DNA targets of chromatin proteins using tethered dam methyltransferase
-
van Steensel B, Henikoff S. Identification of in vivo DNA targets of chromatin proteins using tethered dam methyltransferase. Nat Biotechnol 2000;18:424-8.
-
(2000)
Nat Biotechnol
, vol.18
, pp. 424-428
-
-
van Steensel, B.1
Henikoff, S.2
-
19
-
-
0035093828
-
Chromatin profiling using targeted DNA adenine methyltransferase
-
van Steensel B, Delrow J, Henikoff S. Chromatin profiling using targeted DNA adenine methyltransferase. Nat Genet 2001;27:304-8.
-
(2001)
Nat Genet
, vol.27
, pp. 304-308
-
-
van Steensel, B.1
Delrow, J.2
Henikoff, S.3
-
20
-
-
0345305758
-
Distinct HP1 and Su(var)3-9 complexes bind to sets of developmentally coexpressed genes depending on chromosomal location
-
Greil F, van der Kraan I, Delrow J, et al. Distinct HP1 and Su(var)3-9 complexes bind to sets of developmentally coexpressed genes depending on chromosomal location. Genes Dev 2003;17:2825-38.
-
(2003)
Genes Dev
, vol.17
, pp. 2825-2838
-
-
Greil, F.1
van der Kraan, I.2
Delrow, J.3
-
21
-
-
33747831899
-
DamID: Mapping of in vivo protein-genome interactions using tethered DNA adenine methyltransferase
-
Greil F, Moorman C, van Steensel B. DamID: Mapping of in vivo protein-genome interactions using tethered DNA adenine methyltransferase. Methods Enzymol 2006;410: 342-59.
-
(2006)
Methods Enzymol
, vol.410
, pp. 342-359
-
-
Greil, F.1
Moorman, C.2
van Steensel, B.3
-
22
-
-
0038523952
-
Genomic binding by the Drosophila Myc, Max, Mad/Mnt transcription factor network
-
Orian A, van Steensel B, Delrow J, et al. Genomic binding by the Drosophila Myc, Max, Mad/Mnt transcription factor network. Genes Dev 2003;17:1101-14.
-
(2003)
Genes Dev
, vol.17
, pp. 1101-1114
-
-
Orian, A.1
van Steensel, B.2
Delrow, J.3
-
23
-
-
19344371786
-
Hairy transcriptional repression targets and cofactor recruitment in Drosophila
-
Bianchi-Frias D, Orian A, Delrow JJ, et al. Hairy transcriptional repression targets and cofactor recruitment in Drosophila. PLoS Biol 2004;2:E178.
-
(2004)
PLoS Biol
, vol.2
-
-
Bianchi-Frias, D.1
Orian, A.2
Delrow, J.J.3
-
24
-
-
0041422240
-
Protein-DNA interaction mapping using genomic tiling path microarrays in Drosophila
-
Sun LV, Chen L, Greil F, et al. Protein-DNA interaction mapping using genomic tiling path microarrays in Drosophila. Proc Natl Acad Sci USA 2003; 100:9428-33.
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 9428-9433
-
-
Sun, L.V.1
Chen, L.2
Greil, F.3
-
25
-
-
24344493002
-
Genome-wide HP1 binding in Drosophila: Developmental plasticity and genomic targeting signals
-
de Wit E, Greil F, van Steensel B. Genome-wide HP1 binding in Drosophila: Developmental plasticity and genomic targeting signals. Genome Res 2005;15: 1265-73.
-
(2005)
Genome Res
, vol.15
, pp. 1265-1273
-
-
de Wit, E.1
Greil, F.2
van Steensel, B.3
-
26
-
-
34047231261
-
High-resolution mapping reveals links of HP1 with active and inactive chromatin components
-
de Wit E, Greil F, van Steensel B. High-resolution mapping reveals links of HP1 with active and inactive chromatin components. PLoS Genet 2007;3:e38.
-
(2007)
PLoS Genet
, vol.3
-
-
de Wit, E.1
Greil, F.2
van Steensel, B.3
-
27
-
-
33845295138
-
Human heterochromatin proteins form large domains containing KRAB-ZNF genes
-
Vogel MJ, Guelen L, de Wit E, et al. Human heterochromatin proteins form large domains containing KRAB-ZNF genes. Genome Res 2006;16:1493-504.
-
(2006)
Genome Res
, vol.16
, pp. 1493-1504
-
-
Vogel, M.J.1
Guelen, L.2
de Wit, E.3
-
28
-
-
4544221502
-
Identification of cyclin D3 as a direct target of E2A using DamID
-
Song S, Cooperman J, Letting DL, et al. Identification of cyclin D3 as a direct target of E2A using DamID. Mol Cell Biol 2004;24 8790-802.
-
(2004)
Mol Cell Biol
, vol.24
, pp. 8790-8802
-
-
Song, S.1
Cooperman, J.2
Letting, D.L.3
-
29
-
-
0027160708
-
Targeted gene expression as a means of altering cell fates and generating dominant phenotypes
-
Brand AH, Perrimon N. Targeted gene expression as a means of altering cell fates and generating dominant phenotypes. Development 1993; 118:401-15.
-
(1993)
Development
, vol.118
, pp. 401-415
-
-
Brand, A.H.1
Perrimon, N.2
-
30
-
-
33751330924
-
Prospero acts as a binary switch between self-renewal and differentiation in Drosophila neural stem cells
-
Choksi SP, Southall TD, Bossing T, et al. Prospero acts as a binary switch between self-renewal and differentiation in Drosophila neural stem cells. Dev Cell 2006;11:775-89.
-
(2006)
Dev Cell
, vol.11
, pp. 775-789
-
-
Choksi, S.P.1
Southall, T.D.2
Bossing, T.3
-
31
-
-
39849087105
-
The homeobox transcription factor Even-skipped regulates acquisition of electrical properties in Drosophila neurons
-
Pym EC, Southall TD, Mee CJ, et al. The homeobox transcription factor Even-skipped regulates acquisition of electrical properties in Drosophila neurons. Neural Develop 2006;1:3.
-
(2006)
Neural Develop
, vol.1
, pp. 3
-
-
Pym, E.C.1
Southall, T.D.2
Mee, C.J.3
-
32
-
-
84944180412
-
DamID, a new tool for studying plant chromatin profiling in vivo, and its use to identify putative LHP1 target loci
-
Germann S, Juul-Jensen T, Letarnec B, et al. DamID, a new tool for studying plant chromatin profiling in vivo, and its use to identify putative LHP1 target loci. Plant J 2006;48: 153-63.
-
(2006)
Plant J
, vol.48
, pp. 153-163
-
-
Germann, S.1
Juul-Jensen, T.2
Letarnec, B.3
-
33
-
-
0028246289
-
Light-generated oligonucleotide arrays for rapid DNA sequence analysis
-
Pease AC, Solas D, Sullivan EJ, et al. Light-generated oligonucleotide arrays for rapid DNA sequence analysis. Proc Natl Acad Sci USA 1994;91:5022-6.
-
(1994)
Proc Natl Acad Sci USA
, vol.91
, pp. 5022-5026
-
-
Pease, A.C.1
Solas, D.2
Sullivan, E.J.3
-
34
-
-
0032846163
-
Maskless fabrication of light-directed oligonucleotide microarrays using a digital micromirror array
-
Singh-Gasson S, Green RD, Yue Y, et al. Maskless fabrication of light-directed oligonucleotide microarrays using a digital micromirror array. Nat Biotechnol 1999;17: 974-8.
-
(1999)
Nat Biotechnol
, vol.17
, pp. 974-978
-
-
Singh-Gasson, S.1
Green, R.D.2
Yue, Y.3
-
35
-
-
23844519339
-
A high-resolution map of active promoters in the human genome
-
Kim TH, Barrera LO, Zheng M, et al. A high-resolution map of active promoters in the human genome. Nature 2005;436:876-80.
-
(2005)
Nature
, vol.436
, pp. 876-880
-
-
Kim, T.H.1
Barrera, L.O.2
Zheng, M.3
-
36
-
-
25144525014
-
Core transcriptional regulatory circuitry in human embryonic stem cells
-
Boyer LA, Lee TI, Cole MF, et al. Core transcriptional regulatory circuitry in human embryonic stem cells. Cell 2005;122 947-56.
-
(2005)
Cell
, vol.122
, pp. 947-956
-
-
Boyer, L.A.1
Lee, T.I.2
Cole, M.F.3
-
37
-
-
33746829957
-
DNA microarray technologies for measuring protein-DNA interactions
-
Bulyk ML. DNA microarray technologies for measuring protein-DNA interactions. Curr Opin Biotechnol 2006;17: 422-30.
-
(2006)
Curr Opin Biotechnol
, vol.17
, pp. 422-430
-
-
Bulyk, M.L.1
-
38
-
-
33644860335
-
Chromatin profiling, DamID and the emerging landscape of gene expression
-
Orian A. Chromatin profiling, DamID and the emerging landscape of gene expression. Curr Opin Genet Dev 2006;16: 157-64.
-
(2006)
Curr Opin Genet Dev
, vol.16
, pp. 157-164
-
-
Orian, A.1
-
39
-
-
0346728687
-
Use of protein biotinylation in vivo for chromatin immunoprecipitation
-
Viens A, Mechold U, Lehrmann H, et al. Use of protein biotinylation in vivo for chromatin immunoprecipitation. Anal Biochem 2004;325:68-76.
-
(2004)
Anal Biochem
, vol.325
, pp. 68-76
-
-
Viens, A.1
Mechold, U.2
Lehrmann, H.3
-
40
-
-
33644860985
-
The use of biotin tagging in Saccharomyces cerevisiae improves the sensitivity of chromatin immunoprecipitation
-
van Werven FJ, Timmers HT. The use of biotin tagging in Saccharomyces cerevisiae improves the sensitivity of chromatin immunoprecipitation. Nucleic Acids Res 2006;34: E33.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
van Werven, F.J.1
Timmers, H.T.2
-
41
-
-
33746472337
-
Probing long-distance regulatory interactions in the Drosophila melanogaster bithorax complex using Dam identification
-
Cleard F, Moshkin Y, Karch F, et al. Probing long-distance regulatory interactions in the Drosophila melanogaster bithorax complex using Dam identification. Nat Genet 2006;38:931-5.
-
(2006)
Nat Genet
, vol.38
, pp. 931-935
-
-
Cleard, F.1
Moshkin, Y.2
Karch, F.3
-
42
-
-
3242677215
-
Gene expression systems in Drosophila: A synthesis of time and space
-
McGuire SE, Roman G, Davis RL. Gene expression systems in Drosophila: A synthesis of time and space. Trends Genet 2004;20:384-91.
-
(2004)
Trends Genet
, vol.20
, pp. 384-391
-
-
McGuire, S.E.1
Roman, G.2
Davis, R.L.3
-
43
-
-
20044384522
-
Mapping of genetic and epigenetic regulatory networks using microarrays
-
van Steensel B. Mapping of genetic and epigenetic regulatory networks using microarrays. Nat Genet 2005; 37(Suppl):S18-24.
-
(2005)
Nat Genet
, vol.37
, Issue.SUPPL.
-
-
van Steensel, B.1
-
44
-
-
0037174671
-
Transcriptional regulatory networks in Saccharomyces cerevisiae
-
Lee TI, Rinaldi NJ, Robert F, et al. Transcriptional regulatory networks in Saccharomyces cerevisiae. Science 2002;298 799-804.
-
(2002)
Science
, vol.298
, pp. 799-804
-
-
Lee, T.I.1
Rinaldi, N.J.2
Robert, F.3
-
45
-
-
5444226387
-
An ORFeome-based analysis of human transcription factor genes and the construction of a microarray to interrogate their expression
-
Messina DN, Glasscock J, Gish W, et al. An ORFeome-based analysis of human transcription factor genes and the construction of a microarray to interrogate their expression. Genome Res 2004;14:2041-7.
-
(2004)
Genome Res
, vol.14
, pp. 2041-2047
-
-
Messina, D.N.1
Glasscock, J.2
Gish, W.3
-
46
-
-
11144357294
-
CREB binds to multiple loci on human chromosome 22
-
Euskirchen G, Royce TE, Bertone P, et al. CREB binds to multiple loci on human chromosome 22. Mol Cell Biol 2004; 24:3804-14.
-
(2004)
Mol Cell Biol
, vol.24
, pp. 3804-3814
-
-
Euskirchen, G.1
Royce, T.E.2
Bertone, P.3
-
47
-
-
7444260846
-
-
The ENCODE (ENCyclopedia Of DNA Elements) Project
-
The ENCODE (ENCyclopedia Of DNA Elements) Project. Science 2004; 306:636-40.
-
(2004)
Science
, vol.306
, pp. 636-640
-
-
-
48
-
-
34250305146
-
-
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
-
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 2007;447:799-816.
-
(2007)
Nature
, vol.447
, pp. 799-816
-
-
-
49
-
-
7444267933
-
A gateway-compatible yeast one-hybrid system
-
Deplancke B, Dupuy D, Vidal M, et al. A gateway-compatible yeast one-hybrid system. Genome Res 2004;14:2093-101.
-
(2004)
Genome Res
, vol.14
, pp. 2093-2101
-
-
Deplancke, B.1
Dupuy, D.2
Vidal, M.3
-
50
-
-
33744972290
-
A gene-centered C. elegans protein-DNA interaction network
-
Deplancke B, Mukhopadhyay A, Ao W, et al. A gene-centered C. elegans protein-DNA interaction network. Cell 2006;125 1193-205.
-
(2006)
Cell
, vol.125
, pp. 1193-1205
-
-
Deplancke, B.1
Mukhopadhyay, A.2
Ao, W.3
-
51
-
-
7444256641
-
A first version of the Caenorhabditis elegans Promoterome
-
Dupuy D, Li QR, Deplancke B, et al. A first version of the Caenorhabditis elegans Promoterome. Genome Res 2004;14: 2169-75.
-
(2004)
Genome Res
, vol.14
, pp. 2169-2175
-
-
Dupuy, D.1
Li, Q.R.2
Deplancke, B.3
|