-
1
-
-
84926203507
-
High-resolution digital profiling of the epigenome
-
COI: 1:CAS:528:DC%2BC2cXhslajurvJ
-
Zentner, G. E. & Henikoff, S. High-resolution digital profiling of the epigenome. Nat. Rev. Genet. 15, 814–827 (2014).
-
(2014)
Nat. Rev. Genet.
, vol.15
, pp. 814-827
-
-
Zentner, G.E.1
Henikoff, S.2
-
2
-
-
85045881644
-
Enzymatic methods for genome-wide profiling of protein binding sites
-
COI: 1:CAS:528:DC%2BC1MXmt1Sqt7c%3D
-
Policastro, R. A. & Zentner, G. E. Enzymatic methods for genome-wide profiling of protein binding sites. Brief. Funct. Genom. 17, 138–145 (2018).
-
(2018)
Brief. Funct. Genom.
, vol.17
, pp. 138-145
-
-
Policastro, R.A.1
Zentner, G.E.2
-
3
-
-
83255164884
-
Comprehensive genome-wide protein-DNA interactions detected at single-nucleotide resolution
-
COI: 1:CAS:528:DC%2BC3MXhs1Sgtr3K
-
Rhee, H. S. & Pugh, B. F. Comprehensive genome-wide protein-DNA interactions detected at single-nucleotide resolution. Cell 147, 1408–1419 (2011).
-
(2011)
Cell
, vol.147
, pp. 1408-1419
-
-
Rhee, H.S.1
Pugh, B.F.2
-
4
-
-
84933060493
-
A simple method for generating high-resolution maps of genome-wide protein binding
-
Skene, P. J. & Henikoff, S. A simple method for generating high-resolution maps of genome-wide protein binding. eLife 4, e09225 (2015).
-
(2015)
eLife
, vol.4
-
-
Skene, P.J.1
Henikoff, S.2
-
5
-
-
84895072244
-
High-resolution mapping of transcription factor binding sites on native chromatin
-
COI: 1:CAS:528:DC%2BC3sXhvFensb3N
-
Kasinathan, S., Orsi, G. A., Zentner, G. E., Ahmad, K. & Henikoff, S. High-resolution mapping of transcription factor binding sites on native chromatin. Nat. Methods 11, 203–209 (2014).
-
(2014)
Nat. Methods
, vol.11
, pp. 203-209
-
-
Kasinathan, S.1
Orsi, G.A.2
Zentner, G.E.3
Ahmad, K.4
Henikoff, S.5
-
6
-
-
84887478181
-
Highly expressed loci are vulnerable to misleading ChIP localization of multiple unrelated proteins
-
COI: 1:CAS:528:DC%2BC3sXhvVygsLfJ
-
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
-
7
-
-
0035093828
-
Chromatin profiling using targeted DNA adenine methyltransferase
-
van Steensel, B., Delrow, J. & Henikoff, S. Chromatin profiling using targeted DNA adenine methyltransferase. Nat. Genet. 27, 304–308 (2001).
-
(2001)
Nat. Genet.
, vol.27
, pp. 304-308
-
-
van Steensel, B.1
Delrow, J.2
Henikoff, S.3
-
8
-
-
84944937652
-
ChEC-seq kinetics discriminates transcription factor binding sites by DNA sequence and shape in vivo
-
COI: 1:CAS:528:DC%2BC2MXhslSmt7zN
-
Zentner, G. E., Kasinathan, S., Xin, B., Rohs, R. & Henikoff, S. ChEC-seq kinetics discriminates transcription factor binding sites by DNA sequence and shape in vivo. Nat. Commun. 6, 8733 (2015).
-
(2015)
Nat. Commun.
, vol.6
-
-
Zentner, G.E.1
Kasinathan, S.2
Xin, B.3
Rohs, R.4
Henikoff, S.5
-
9
-
-
85013174100
-
An efficient targeted nuclease strategy for high-resolution mapping of DNA binding sites
-
Skene, P. J. & Henikoff, S. An efficient targeted nuclease strategy for high-resolution mapping of DNA binding sites. Elife 6, e21856 (2017).
-
(2017)
Elife
, vol.6
-
-
Skene, P.J.1
Henikoff, S.2
-
10
-
-
85046096265
-
Targeted in situ genome-wide profiling with high efficiency for low cell numbers
-
COI: 1:CAS:528:DC%2BC1cXnsFCns7c%3D
-
Skene, P. J., Henikoff, J. G. & Henikoff, S. Targeted in situ genome-wide profiling with high efficiency for low cell numbers. Nat. Protoc. 13, 1006–1019 (2018).
-
(2018)
Nat. Protoc.
, vol.13
, pp. 1006-1019
-
-
Skene, P.J.1
Henikoff, J.G.2
Henikoff, S.3
-
11
-
-
4944227536
-
ChlC and ChEC: genomic mapping of chromatin proteins
-
COI: 1:CAS:528:DC%2BD2cXptVKqtrk%3D, PID: 15469830
-
Schmid, M., Durussel, T. & Laemmli, U. K. ChlC and ChEC: genomic mapping of chromatin proteins. Mol. Cell 16, 147–157 (2004).
-
(2004)
Mol. Cell
, vol.16
, pp. 147-157
-
-
Schmid, M.1
Durussel, T.2
Laemmli, U.K.3
-
12
-
-
85052990879
-
High-throughput chromatin accessibility profiling at single-cell resolution
-
Mezger, A. et al. High-throughput chromatin accessibility profiling at single-cell resolution. Nat. Commun. 9, 3647 (2018).
-
(2018)
Nat. Commun.
, vol.9
, pp. 3647
-
-
Mezger, A.1
-
13
-
-
85009446777
-
Massively parallel digital transcriptional profiling of single cells
-
COI: 1:CAS:528:DC%2BC2sXht1WlsLo%3D
-
Zheng, G. X. et al. Massively parallel digital transcriptional profiling of single cells. Nat. Commun. 8, 14049 (2017).
-
(2017)
Nat. Commun.
, vol.8
-
-
Zheng, G.X.1
-
14
-
-
0037336665
-
Tn5 as a model for understanding DNA transposition
-
COI: 1:CAS:528:DC%2BD3sXitFWrtrs%3D
-
Reznikoff, W. S. Tn5 as a model for understanding DNA transposition. Mol. Microbiol. 47, 1199–1206 (2003).
-
(2003)
Mol. Microbiol.
, vol.47
, pp. 1199-1206
-
-
Reznikoff, W.S.1
-
15
-
-
84913593681
-
Tn5 transposase and tagmentation procedures for massively scaled sequencing projects
-
COI: 1:CAS:528:DC%2BC2cXitVOls7%2FF
-
Picelli, S. et al. Tn5 transposase and tagmentation procedures for massively scaled sequencing projects. Genome Res. 24, 2033–2040 (2014).
-
(2014)
Genome Res.
, vol.24
, pp. 2033-2040
-
-
Picelli, S.1
-
16
-
-
33744824117
-
Defining characteristics of Tn5 transposase non-specific DNA binding
-
COI: 1:CAS:528:DC%2BD28XmsVeisLs%3D
-
Steiniger, M., Adams, C. D., Marko, J. F. & Reznikoff, W. S. Defining characteristics of Tn5 transposase non-specific DNA binding. Nucleic Acids Res. 34, 2820–2832 (2006).
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 2820-2832
-
-
Steiniger, M.1
Adams, C.D.2
Marko, J.F.3
Reznikoff, W.S.4
-
17
-
-
84888877924
-
Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position
-
COI: 1:CAS:528:DC%2BC3sXhsFOiu7jO
-
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(2013).
-
(2013)
Nat. Methods
, vol.10
, pp. 1213
-
-
Buenrostro, J.D.1
Giresi, P.G.2
Zaba, L.C.3
Chang, H.Y.4
Greenleaf, W.J.5
-
18
-
-
85058906901
-
Automated in situ profiling of chromatin modifications resolves cell types and gene regulatory programs
-
Janssens, D. H. et al. Automated in situ profiling of chromatin modifications resolves cell types and gene regulatory programs. Epigenetics Chromatin 11, 74 (2018).
-
(2018)
Epigenetics Chromatin
, vol.11
, pp. 74
-
-
Janssens, D.H.1
-
19
-
-
84865777819
-
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
-
COI: 1:CAS:528:DC%2BC38XhtlentLvJ
-
Landt, S. G. et al. ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia. Genome Res. 22, 1813–1831 (2012).
-
(2012)
Genome Res.
, vol.22
, pp. 1813-1831
-
-
Landt, S.G.1
-
20
-
-
84986877616
-
The pol II CTD: new twists in the tail
-
COI: 1:CAS:528:DC%2BC28XhsV2jurjM
-
Zaborowska, J., Egloff, S. & Murphy, S. The pol II CTD: new twists in the tail. Nat. Struct. Mol. Biol. 23, 771–777 (2016).
-
(2016)
Nat. Struct. Mol. Biol.
, vol.23
, pp. 771-777
-
-
Zaborowska, J.1
Egloff, S.2
Murphy, S.3
-
21
-
-
84865790047
-
An integrated encyclopedia of DNA elements in the human genome
-
Consortium, E. P. An integrated encyclopedia of DNA elements in the human genome. Nature 489, 57–74 (2012).
-
(2012)
Nature
, vol.489
, pp. 57-74
-
-
Consortium, E.P.1
-
22
-
-
84927559450
-
Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancers
-
COI: 1:CAS:528:DC%2BC2cXhvFKmtbbI
-
Core, L. J. et al. Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancers. Nat. Genet. 46, 1311–1320 (2014).
-
(2014)
Nat. Genet.
, vol.46
, pp. 1311-1320
-
-
Core, L.J.1
-
23
-
-
85028389163
-
In situ capture of chromatin interactions by biotinylated dCas9
-
COI: 1:CAS:528:DC%2BC2sXhtlyltLzJ
-
Liu, X. et al. In situ capture of chromatin interactions by biotinylated dCas9. Cell 170, 1028–1043 e1019 (2017).
-
(2017)
Cell
, vol.170
, pp. 1028-1043 e1019
-
-
Liu, X.1
-
24
-
-
0036429193
-
The human and mouse replication-dependent histone genes
-
COI: 1:CAS:528:DC%2BD38XotVyqu7s%3D
-
Marzluff, W. F., Gongidi, P., Woods, K. R., Jin, J. P. & Maltais, L. J. The human and mouse replication-dependent histone genes. Genomics 80, 487–498 (2002).
-
(2002)
Genomics
, vol.80
, pp. 487-498
-
-
Marzluff, W.F.1
Gongidi, P.2
Woods, K.R.3
Jin, J.P.4
Maltais, L.J.5
-
25
-
-
85058916589
-
-
Hainer, S. J., Boskovic, A., Rando, O. J. & Fazzio, T. G. Profiling of pluripotency factors in individual stem cells and early embryos. bioRxiv. p.286351 (2018).
-
(2018)
Profiling of pluripotency factors in individual stem cells and early embryos
, pp. 286351
-
-
Hainer, S.J.1
Boskovic, A.2
Rando, O.J.3
Fazzio, T.G.4
-
26
-
-
84922537404
-
Haplotype-resolved whole-genome sequencing by contiguity-preserving transposition and combinatorial indexing
-
COI: 1:CAS:528:DC%2BC2cXhslOisrnN
-
Amini, S. et al. Haplotype-resolved whole-genome sequencing by contiguity-preserving transposition and combinatorial indexing. Nat. Genet. 46, 1343–1349 (2014).
-
(2014)
Nat. Genet.
, vol.46
, pp. 1343-1349
-
-
Amini, S.1
-
27
-
-
85044252958
-
Exponential scaling of single-cell RNA-seq in the past decade
-
COI: 1:CAS:528:DC%2BC1cXjs1agu74%3D
-
Svensson, V., Vento-Tormo, R. & Teichmann, S. A. Exponential scaling of single-cell RNA-seq in the past decade. Nat. Protoc. 13, 599–604 (2018).
-
(2018)
Nat. Protoc.
, vol.13
, pp. 599-604
-
-
Svensson, V.1
Vento-Tormo, R.2
Teichmann, S.A.3
-
28
-
-
85058147329
-
A chromatin integration labelling method enables epigenomic profiling with lower input
-
Harada, A. et al. A chromatin integration labelling method enables epigenomic profiling with lower input. Nat. Cell Biol. 21, 287–296 (2018).
-
(2018)
Nature Cell Biology
, vol.21
, Issue.2
, pp. 287-296
-
-
Harada, A.1
Maehara, K.2
Handa, T.3
Arimura, Y.4
Nogami, J.5
Hayashi-Takanaka, Y.6
Shirahige, K.7
Kurumizaka, H.8
Kimura, H.9
Ohkawa, Y.10
-
29
-
-
85065097786
-
-
10xgenomics. https://www.10xgenomics.com/solutions/single-cell-atac.
-
-
-
-
30
-
-
84946545109
-
Single-cell ChIP-seq reveals cell subpopulations defined by chromatin state
-
COI: 1:CAS:528:DC%2BC2MXhs1ChurfK
-
Rotem, A. et al. Single-cell ChIP-seq reveals cell subpopulations defined by chromatin state. Nat. Biotechnol. 33, 1165–1172 (2015).
-
(2015)
Nat. Biotechnol.
, vol.33
, pp. 1165-1172
-
-
Rotem, A.1
-
31
-
-
85049621520
-
Single-cell multi-omics: an engine for new quantitative models of gene regulation
-
COI: 1:CAS:528:DC%2BC1cXht1Cjt7fL
-
Packer, J. & Trapnell, C. Single-cell multi-omics: an engine for new quantitative models of gene regulation. Trends Genet. 34, 653–665 (2018).
-
(2018)
Trends Genet.
, vol.34
, pp. 653-665
-
-
Packer, J.1
Trapnell, C.2
-
33
-
-
84937857359
-
Single-cell chromatin accessibility reveals principles of regulatory variation
-
COI: 1:CAS:528:DC%2BC2MXhtFyltLrN
-
Buenrostro, J. D. et al. Single-cell chromatin accessibility reveals principles of regulatory variation. Nature 523, 486–U264 (2015).
-
(2015)
Nature
, vol.523
, pp. 264-486
-
-
Buenrostro, J.D.1
|