-
1
-
-
33846623381
-
Somatic transformation efficiencies and expression patterns using the JcDNV and piggyBac transposon gene vectors in insect
-
Bossin, H., R. B. Furlong, J. L. Gillett, M. Bergoin, and P. D. Shirk,2007 Somatic transformation efficiencies and expression patterns using the JcDNV and piggyBac transposon gene vectors in insect. Insect Mol. Biol. 16: 37-47.
-
(2007)
Insect Mol. Biol.
, vol.16
, pp. 37-47
-
-
Bossin, H.1
Furlong, R.B.2
Gillett, J.L.3
Bergoin, M.4
Shirk, P.D.5
-
2
-
-
25144525014
-
Core transcriptional regulatory circuitry in human embryonic stem cells
-
Boyer, L. A., T. I. Lee, M. F. Cole, S. E. Johnstone, S. S. Levine et al., 2005 Core transcriptional regulatory circuitry in human embryonic stem cells. Cell 122: 947-956.
-
(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
-
3
-
-
65549107163
-
Distinct DNA methylation patterns characterize differentiated human embryonic stem cells and developing human fetal liver
-
Brunner, A. L., D. S. Johnson, S. W. Kim, A. Valouev, T. E. Reddy et al., 2009 Distinct DNA methylation patterns characterize differentiated human embryonic stem cells and developing human fetal liver. Genome Res. 19: 1044-1056.
-
(2009)
Genome Res.
, vol.19
, pp. 1044-1056
-
-
Brunner, A.L.1
Johnson, D.S.2
Kim, S.W.3
Valouev, A.4
Reddy, T.E.5
-
4
-
-
0024449118
-
Transposon mutagenesis of baculoviruses: Analysis of Trichoplusia in transposon IFP2 insertions within the FP-locus of nuclear polyhedrosis viruses
-
Cary, L. C., M. Goebel, B. G. Corsaro, H. G. Wang, E. Rosen et al., 1989 Transposon mutagenesis of baculoviruses: analysis of Trichoplusia in transposon IFP2 insertions within the FP-locus of nuclear polyhedrosis viruses. Virology 172: 156-169.
-
(1989)
Virology
, vol.172
, pp. 156-169
-
-
Cary, L.C.1
Goebel, M.2
Corsaro, B.G.3
Wang, H.G.4
Rosen, E.5
-
5
-
-
23744479962
-
Efficient transposition of the piggyBac (PB) transposon in mammalian cells and mice
-
Ding, S., X. Wu, G. Li, M. Han, Y. Zhuang et al., 2005 Efficient transposition of the piggyBac (PB) transposon in mammalian cells and mice. Cell 122: 473-483.
-
(2005)
Cell
, vol.122
, pp. 473-483
-
-
Ding, S.1
Wu, X.2
Li, G.3
Han, M.4
Zhuang, Y.5
-
6
-
-
58149234737
-
Real-time DNA sequencing from single polymerase molecules
-
Eid, J., A. Fehr, J. Gray, K. Luong, J. Lyle et al., 2009 Real-time DNA sequencing from single polymerase molecules. Science 323: 133-138.
-
(2009)
Science
, vol.323
, pp. 133-138
-
-
Eid, J.1
Fehr, A.2
Gray, J.3
Luong, K.4
Lyle, J.5
-
7
-
-
48249140621
-
FindPeaks 3.1: A tool for identifying areas of enrichment from massively parallel short-read sequencing technology
-
Fejes, A. P., G. Robertson, M. Bilenky, R. Varhol, M. Bainbridge et al., 2008 FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology. Bioinformatics 24: 1729-1730.
-
(2008)
Bioinformatics
, vol.24
, pp. 1729-1730
-
-
Fejes, A.P.1
Robertson, G.2
Bilenky, M.3
Varhol, R.4
Bainbridge, M.5
-
8
-
-
78650675586
-
DNA transposon Hermes inserts into DNA in nucleosome-free regions in vivo
-
Gangadharan, S., L. Mularoni, J. Fain-Thornton, S. J. Wheelan, and N. L. Craig, 2010 DNA transposon Hermes inserts into DNA in nucleosome-free regions in vivo. Proc. Natl. Acad. Sci. USA 107:21966-21972.
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 21966-21972
-
-
Gangadharan, S.1
Mularoni, L.2
Fain-Thornton, J.3
Wheelan, S.J.4
Craig, N.L.5
-
9
-
-
77957932941
-
Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications
-
Harris, R. A., T. Wang, C. Coarfa, R. P. Nagarajan, C. Hong et al., 2010 Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications. Nat. Biotechnol. 28: 1097-1105.
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 1097-1105
-
-
Harris, R.A.1
Wang, T.2
Coarfa, C.3
Nagarajan, R.P.4
Hong, C.5
-
10
-
-
41749104588
-
Single-molecule DNA sequencing of a viral genome
-
Harris, T. D., P. R. Buzby, H. Babcock, E. Beer, J. Bowers et al., 2008 Single-molecule DNA sequencing of a viral genome. Science 320: 106-109.
-
(2008)
Science
, vol.320
, pp. 106-109
-
-
Harris, T.D.1
Buzby, P.R.2
Babcock, H.3
Beer, E.4
Bowers, J.5
-
11
-
-
77957579849
-
Gene transfer efficiency and genome-wide integration profiling of Sleeping Beauty, Tol2, and PiggyBac transposons in human primary T cells
-
Huang, X., H. Guo, S. Tammana, Y. C. Jung, E. Mellgren et al., 2010 Gene transfer efficiency and genome-wide integration profiling of Sleeping Beauty, Tol2, and PiggyBac transposons in human primary T cells. Mol. Ther. 18: 1803-1813.
-
(2010)
Mol. Ther.
, vol.18
, pp. 1803-1813
-
-
Huang, X.1
Guo, H.2
Tammana, S.3
Jung, Y.C.4
Mellgren, E.5
-
12
-
-
0034628901
-
Computational identification of cis-regulatory elements associated with groups of functionally related genes in Saccharomyces cerevisiae
-
Hughes, J. D., P. W. Estep, S. Tavazoie, and G. M. Church, 2000 Computational identification of cis-regulatory elements associated with groups of functionally related genes in Saccharomyces cerevisiae. J. Mol. Biol. 296: 1205-1214.
-
(2000)
J. Mol. Biol.
, vol.296
, pp. 1205-1214
-
-
Hughes, J.D.1
Estep, P.W.2
Tavazoie, S.3
Church, G.M.4
-
13
-
-
34250159524
-
Genome-wide mapping of in vivo protein-DNA interactions
-
Johnson, D. S., A. Mortazavi, R. M. Myers, and B. Wold, 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
-
14
-
-
0036079158
-
The human genome browser at UCSC
-
Kent, W. J., C. W. Sugnet, T. S. Furey, K. M. Roskin, T. H. Pringle et al., 2002 The human genome browser at UCSC. Genome Res. 12: 996-1006.
-
(2002)
Genome Res.
, vol.12
, pp. 996-1006
-
-
Kent, W.J.1
Sugnet, C.W.2
Furey, T.S.3
Roskin, K.M.4
Pringle, T.H.5
-
15
-
-
57449100870
-
Design and analysis of ChIP-seq experiments for DNAbinding proteins
-
Kharchenko, P. V., M. Y. Tolsotorukov, and P. J. Park, 2008 Design and analysis of ChIP-seq experiments for DNAbinding proteins. Nat. Biotechnol. 26: 1351-1359.
-
(2008)
Nat. Biotechnol.
, vol.26
, pp. 1351-1359
-
-
Kharchenko, P.V.1
Tolsotorukov, M.Y.2
Park, P.J.3
-
16
-
-
62349130698
-
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
-
Langmead, B., C. Trapnell, M. Pop, and S. L. Salzberg, 2009 Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 10: R25.
-
(2009)
Genome Biol.
, vol.10
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
18
-
-
33749632441
-
Interplasmid transposition demonstrates piggyBac mobility in vertebrate species
-
Lobo, N. F., T. S. Fraser, J. A. Adams, and M. J. Fraser, 2006 Interplasmid transposition demonstrates piggyBac mobility in vertebrate species. Genetica 128: 347-357.
-
(2006)
Genetica
, vol.128
, pp. 347-357
-
-
Lobo, N.F.1
Fraser, T.S.2
Adams, J.A.3
Fraser, M.J.4
-
19
-
-
0023615620
-
Plasmid construction by homologous recombination in yeast
-
Ma, H., S. Kunes, P. J. Schatz, and D. Botstein, 1987 Plasmid construction by homologous recombination in yeast. Gene 58: 201-216.
-
(1987)
Gene
, vol.58
, pp. 201-216
-
-
Ma, H.1
Kunes, S.2
Schatz, P.J.3
Botstein, D.4
-
20
-
-
0037208166
-
TRANSFAC: Transcriptional regulation, from patterns to profiles
-
Matys, V., E. Fricke, R. Geffers, E. Gössling, M. Haubrock et al., 2003 TRANSFAC: transcriptional regulation, from patterns to profiles. Nucleic Acids Res. 31: 374-378.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 374-378
-
-
Matys, V.1
Fricke, E.2
Geffers, R.3
Gössling, E.4
Haubrock, M.5
-
21
-
-
41949108098
-
PiggyBac can bypass DNA synthesis during cut and paste transposition
-
Mitra, R., J. Fain-Thornton, and N. L. Craig, 2008 piggyBac can bypass DNA synthesis during cut and paste transposition. EMBO J. 27: 1097-1109.
-
(2008)
EMBO J.
, vol.27
, pp. 1097-1109
-
-
Mitra, R.1
Fain-Thornton, J.2
Craig, N.L.3
-
22
-
-
0033178330
-
A tale of three fingers: The family of mammalian Sp/XKLF transcription factors
-
Philipsen, S., and G. Suske, 1999 A tale of three fingers: the family of mammalian Sp/XKLF transcription factors. Nucleic Acids Res. 27: 2991-3000.
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 2991-3000
-
-
Philipsen, S.1
Suske, G.2
-
23
-
-
34547633677
-
Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing
-
Robertson, G., M. Hirst, M. Bainbridge, M. Bilenky, Y. Zhao et al., 2007 Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing. Nat. Methods 4: 651-657.
-
(2007)
Nat. Methods
, vol.4
, pp. 651-657
-
-
Robertson, G.1
Hirst, M.2
Bainbridge, M.3
Bilenky, M.4
Zhao, Y.5
-
24
-
-
33745416080
-
Genome-scale mapping of DNaseI sensitivity in vivo using tiling DNA microarrays
-
Sabo, P. J., M. S. Kuehn, R. Thurman, B. E. Johnson, E. M. Johnson et al., 2006 Genome-scale mapping of DNaseI sensitivity in vivo using tiling DNA microarrays. Nat. Methods 3: 511-518.
-
(2006)
Nat Methods
, vol.3
, pp. 511-518
-
-
Sabo, P.J.1
Kuehn, M.S.2
Thurman, R.3
Johnson, B.E.4
Johnson, E.M.5
-
25
-
-
0025963058
-
Recovery of plasmids from yeast into Escherichia coli: Shuttle vectors
-
Strathern, J. N., and D. R. Higgins, 1991 Recovery of plasmids from yeast into Escherichia coli: shuttle vectors. Methods Enzymol. 194: 319-329.
-
(1991)
Methods Enzymol.
, vol.194
, pp. 319-329
-
-
Strathern, J.N.1
Higgins, D.R.2
-
26
-
-
33747195353
-
Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors
-
Takahashi, K., and S. Yamanaka, 2006 Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors. Cell 126: 663-676.
-
(2006)
Cell
, vol.126
, pp. 663-676
-
-
Takahashi, K.1
Yamanaka, S.2
-
27
-
-
65449136284
-
TopHat: Discovering splice junctions with RNA-Seq
-
Trapnell, C., L. Pachter, and S. L. Salzberg, 2009 TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25: 1105-1111.
-
(2009)
Bioinformatics
, vol.25
, pp. 1105-1111
-
-
Trapnell, C.1
Pachter, L.2
Salzberg, S.L.3
-
28
-
-
77952123055
-
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
-
Trapnell, C., B. A. Williams, G. Pertea, A. Mortazavi, G. Kwan et al., 2010 Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat. Biotechnol. 28: 511-515.
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 511-515
-
-
Trapnell, C.1
Williams, B.A.2
Pertea, G.3
Mortazavi, A.4
Kwan, G.5
-
29
-
-
50849090969
-
Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data
-
Valouev, A., D. S. Johnson, A. Sundquist, C. Medina, E. Anton et al., 2008 Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data. Nat. Methods 5: 829-834.
-
(2008)
Nat. Methods
, vol.5
, pp. 829-834
-
-
Valouev, A.1
Johnson, D.S.2
Sundquist, A.3
Medina, C.4
Anton, E.5
-
30
-
-
0034007256
-
Identification of in vivo DNA targets of chromatin proteins using tethered dam methyltransferase
-
Van Steensel, B., and S. Henikoff, 2000 Identification of in vivo DNA targets of chromatin proteins using tethered dam methyltransferase. Nat. Biotechnol. 18: 424-428.
-
(2000)
Nat. Biotechnol.
, vol.18
, pp. 424-428
-
-
van Steensel, B.1
Henikoff, S.2
-
31
-
-
34250791291
-
Detection of in vivo protein-DNA interactions using DamID in mammalian cells
-
Vogel, M. J., D. Peric-Hupkes, and B. van Steensel, 2007 Detection of in vivo protein-DNA interactions using DamID in mammalian cells. Nat. Protoc. 2: 1467-1478.
-
(2007)
Nat. Protoc.
, vol.2
, pp. 1467-1478
-
-
Vogel, M.J.1
Peric-Hupkes, D.2
van Steensel, B.3
-
32
-
-
0028676232
-
New heterologous modules for classical or PCR-based gene disruptions in Saccharomyces cerevisiae
-
Wach, A., A. Brachat, R. Pöhlmann, and P. Philippsen, 1994 New heterologous modules for classical or PCR-based gene disruptions in Saccharomyces cerevisiae. Yeast 10: 1793-1808.
-
(1994)
Yeast
, vol.10
, pp. 1793-1808
-
-
Wach, A.1
Brachat, A.2
Pöhlmann, R.3
Philippsen, P.4
-
33
-
-
34547635426
-
Calling cards for DNA-binding proteins
-
Wang, H., M. Johnston, and R. D. Mitra, 2007 Calling cards for DNA-binding proteins. Genome Res. 17: 1202-1209.
-
(2007)
Genome Res.
, vol.17
, pp. 1202-1209
-
-
Wang, H.1
Johnston, M.2
Mitra, R.D.3
-
34
-
-
79955562246
-
Calling Cards enable multiplexed identification of the genomic targets of DNA-binding proteins
-
Wang, H., D. Mayhew, X. Chen, M. Johnston, and R. D. Mitra, 2011 Calling Cards enable multiplexed identification of the genomic targets of DNA-binding proteins. Genome Res. 21: 748-755.
-
(2011)
Genome Res.
, vol.21
, pp. 748-755
-
-
Wang, H.1
Mayhew, D.2
Chen, X.3
Johnston, M.4
Mitra, R.D.5
-
35
-
-
44749090905
-
SP1: Emerging roles: Beyond constituitive activation of TATA-less housekeeping genes
-
Wierstra, I., 2008 SP1: emerging roles: beyond constituitive activation of TATA-less housekeeping genes. Biochem. Biophys. Res. Commun. 372: 1-13.
-
(2008)
Biochem. Biophys. Res. Commun.
, vol.372
, pp. 1-13
-
-
Wierstra, I.1
-
36
-
-
77955368935
-
Evaluation of algorithm performance in ChIP-seq peak detection
-
Wilbanks, E. G., and M. T. Facciotti, 2010 Evaluation of algorithm performance in ChIP-seq peak detection. PLoS ONE 5: e11471.
-
(2010)
PLoS ONE
, vol.5
-
-
Wilbanks, E.G.1
Facciotti, M.T.2
-
37
-
-
33845981514
-
PiggyBac transposon-mediated gene transfer in human cells
-
Wilson, M. H., C. J. Coates, and A. L. George, 2007 PiggyBac transposon-mediated gene transfer in human cells. Mol. Ther. 15: 139-145.
-
(2007)
Mol. Ther.
, vol.15
, pp. 139-145
-
-
Wilson, M.H.1
Coates, C.J.2
George, A.L.3
-
38
-
-
33750060436
-
PiggyBac is a flexible and highly active transposon as compared to sleeping beauty, Tol2, and Mos1 in mammalian cells
-
Wu, S. C., Y. J. Meir, C. J. Coates, A. M. Handler, P. Pelczar et al., 2006 PiggyBac is a flexible and highly active transposon as compared to sleeping beauty, Tol2, and Mos1 in mammalian cells. Proc. Natl. Acad. Sci. USA 103: 15008-15013.
-
(2006)
Proc. Natl. Acad. Sci. USA
, vol.103
, pp. 15008-15013
-
-
Wu, S.C.1
Meir, Y.J.2
Coates, C.J.3
Handler, A.M.4
Pelczar, P.5
-
39
-
-
53849146020
-
Model-based analysis of ChIP-seq (MACS)
-
Zhang, Y., T. Liu, C. A. Meyer, J. Eeckhoute, D. S. Johnson et al., 2008 Model-based analysis of ChIP-seq (MACS). Genome Biol. 9: R137.
-
(2008)
Genome Biol.
, vol.9
-
-
Zhang, Y.1
Liu, T.2
Meyer, C.A.3
Eeckhoute, J.4
Johnson, D.S.5
|