메뉴 건너뛰기




Volumn 12, Issue 3, 2015, Pages 237-243

Digenome-seq: Genome-wide profiling of CRISPR-Cas9 off-target effects in human cells

Author keywords

[No Author keywords available]

Indexed keywords

CELLULAR APOPTOSIS SUSCEPTIBILITY PROTEIN; CRISPR ASSOCIATED PROTEIN; GENOMIC DNA; GUIDE RNA; ENDONUCLEASE;

EID: 84923846574     PISSN: 15487091     EISSN: 15487105     Source Type: Journal    
DOI: 10.1038/nmeth.3284     Document Type: Article
Times cited : (808)

References (47)
  • 1
    • 0038523969 scopus 로고    scopus 로고
    • Chimeric nucleases stimulate gene targeting in human cells
    • Porteus, M.H. & Baltimore, D. Chimeric nucleases stimulate gene targeting in human cells. Science 300, 763 (2003
    • (2003) Science , vol.300 , pp. 763
    • Porteus, M.H.1    Baltimore, D.2
  • 2
    • 0037510038 scopus 로고    scopus 로고
    • Enhancing gene targeting with designed zinc finger nucleases
    • Bibikova, M., Beumer, K., Trautman, J.K. & Carroll, D. Enhancing gene targeting with designed zinc finger nucleases. Science 300, 764 (2003
    • (2003) Science , vol.300 , pp. 764
    • Bibikova, M.1    Beumer, K.2    Trautman, J.K.3    Carroll, D.4
  • 3
    • 18944373328 scopus 로고    scopus 로고
    • Highly efficient endogenous human gene correction using designed zinc-finger nucleases
    • Urnov, F.D., et al. Highly efficient endogenous human gene correction using designed zinc-finger nucleases. Nature 435, 646-651 (2005
    • (2005) Nature , vol.435 , pp. 646-651
    • Urnov, F.D.1
  • 4
    • 67650045497 scopus 로고    scopus 로고
    • Targeted genome editing in human cells with zinc finger nucleases constructed via modular assembly
    • Kim, H.J., Lee, H.J., Kim, H., Cho, S.W. & Kim, J.S. Targeted genome editing in human cells with zinc finger nucleases constructed via modular assembly. Genome Res. 19, 1279-1288 (2009
    • (2009) Genome Res , vol.19 , pp. 1279-1288
    • Kim, H.J.1    Lee, H.J.2    Kim, H.3    Cho, S.W.4    Kim, J.S.5
  • 5
    • 80255134581 scopus 로고    scopus 로고
    • Surrogate reporters for enrichment of cells with nuclease-induced mutations
    • Kim, H., Um, E., Cho, S.R., Jung, C. & Kim, J.S. Surrogate reporters for enrichment of cells with nuclease-induced mutations. Nat. Methods 8, 941-943 (2011
    • (2011) Nat. Methods , vol.8 , pp. 941-943
    • Kim, H.1    Um, E.2    Cho, S.R.3    Jung, C.4    Kim, J.S.5
  • 6
    • 79551685675 scopus 로고    scopus 로고
    • A TALE nuclease architecture for efficient genome editing
    • Miller, J.C., et al. A TALE nuclease architecture for efficient genome editing. Nat. Biotechnol. 29, 143-148 (2011
    • (2011) Nat. Biotechnol , vol.29 , pp. 143-148
    • Miller, J.C.1
  • 7
    • 84875157258 scopus 로고    scopus 로고
    • A library of TAL effector nucleases spanning the human genome
    • Kim, Y., et al. A library of TAL effector nucleases spanning the human genome. Nat. Biotechnol. 31, 251-258 (2013
    • (2013) Nat. Biotechnol , vol.31 , pp. 251-258
    • Kim, Y.1
  • 8
    • 84890212376 scopus 로고    scopus 로고
    • TALEN-based knockout library for human microRNAs
    • Kim, Y.K., et al. TALEN-based knockout library for human microRNAs. Nat. Struct. Mol. Biol. 20, 1458-1464 (2013
    • (2013) Nat. Struct. Mol. Biol , vol.20 , pp. 1458-1464
    • Kim, Y.K.1
  • 9
    • 84873734105 scopus 로고    scopus 로고
    • RNA-guided human genome engineering via Cas9
    • Mali, P., et al. RNA-guided human genome engineering via Cas9. Science 339, 823-826 (2013
    • (2013) Science , vol.339 , pp. 823-826
    • Mali, P.1
  • 10
    • 84876567971 scopus 로고    scopus 로고
    • RNA-programmed genome editing in human cells
    • Jinek, M., et al. RNA-programmed genome editing in human cells. eLife 2, e00471 (2013
    • (2013) Elife , vol.2 , pp. e00471
    • Jinek, M.1
  • 11
    • 84874608929 scopus 로고    scopus 로고
    • RNA-guided editing of bacterial genomes using CRISPR-Cas systems
    • Jiang, W., Bikard, D., Cox, D., Zhang, F. & Marraffini, L.A. RNA-guided editing of bacterial genomes using CRISPR-Cas systems. Nat. Biotechnol. 31, 233-239 (2013
    • (2013) Nat. Biotechnol , vol.31 , pp. 233-239
    • Jiang, W.1    Bikard, D.2    Cox, D.3    Zhang, F.4    Marraffini, L.A.5
  • 12
    • 84874617789 scopus 로고    scopus 로고
    • Efficient genome editing in zebrafish using a CRISPR-Cas system
    • Hwang, W.Y., et al. Efficient genome editing in zebrafish using a CRISPR-Cas system. Nat. Biotechnol. 31, 227-229 (2013
    • (2013) Nat. Biotechnol , vol.31 , pp. 227-229
    • Hwang, W.Y.1
  • 13
    • 84873729095 scopus 로고    scopus 로고
    • Multiplex genome engineering using CRISPR/Cas systems
    • Cong, L., et al. Multiplex genome engineering using CRISPR/Cas systems. Science 339, 819-823 (2013
    • (2013) Science , vol.339 , pp. 819-823
    • Cong, L.1
  • 14
    • 84884911076 scopus 로고    scopus 로고
    • Heritable gene knockout in Caenorhabditis elegans by direct injection of Cas9-sgRNA ribonucleoproteins
    • Cho, S.W., Lee, J., Carroll, D., Kim, J.S. & Lee, J. Heritable gene knockout in Caenorhabditis elegans by direct injection of Cas9-sgRNA ribonucleoproteins. Genetics 195, 1177-1180 (2013
    • (2013) Genetics , vol.195 , pp. 1177-1180
    • Cho, S.W.1    Lee, J.2    Carroll, D.3    Kim, J.S.4    Lee, J.5
  • 15
    • 84874624936 scopus 로고    scopus 로고
    • Targeted genome engineering in human cells with the Cas9 RNA-guided endonuclease
    • Cho, S.W., Kim, S., Kim, J.M. & Kim, J.S. Targeted genome engineering in human cells with the Cas9 RNA-guided endonuclease. Nat. Biotechnol. 31, 230-232 (2013
    • (2013) Nat. Biotechnol , vol.31 , pp. 230-232
    • Cho, S.W.1    Kim, S.2    Kim, J.M.3    Kim, J.S.4
  • 16
    • 84898778301 scopus 로고    scopus 로고
    • A guide to genome engineering with programmable nucleases
    • Kim, H. & Kim, J.S. A guide to genome engineering with programmable nucleases. Nat. Rev. Genet. 15, 321-334 (2014
    • (2014) Nat. Rev. Genet , vol.15 , pp. 321-334
    • Kim, H.1    Kim, J.S.2
  • 17
    • 84884155038 scopus 로고    scopus 로고
    • High-Throughput profiling of off-Target DNA cleavage reveals RNA-programmed Cas9 nuclease specificity
    • Pattanayak, V., et al. High-Throughput profiling of off-Target DNA cleavage reveals RNA-programmed Cas9 nuclease specificity. Nat. Biotechnol. 31, 839-843 (2013
    • (2013) Nat. Biotechnol , vol.31 , pp. 839-843
    • Pattanayak, V.1
  • 18
    • 84880570576 scopus 로고    scopus 로고
    • High-frequency off-Target mutagenesis induced by CRISPR-Cas nucleases in human cells
    • Fu, Y., et al. High-frequency off-Target mutagenesis induced by CRISPR-Cas nucleases in human cells. Nat. Biotechnol. 31, 822-826 (2013
    • (2013) Nat. Biotechnol , vol.31 , pp. 822-826
    • Fu, Y.1
  • 19
    • 84884950106 scopus 로고    scopus 로고
    • CRISPR/Cas9 systems targeting β-globin and CCR5 genes have substantial off-Target activity
    • Cradick, T.J., Fine, E.J., Antico, C.J. & Bao, G. CRISPR/Cas9 systems targeting β-globin and CCR5 genes have substantial off-Target activity. Nucleic Acids Res. 41, 9584-9592 (2013
    • (2013) Nucleic Acids Res , vol.41 , pp. 9584-9592
    • Cradick, T.J.1    Fine, E.J.2    Antico, C.J.3    Bao, G.4
  • 20
    • 84891710947 scopus 로고    scopus 로고
    • Analysis of off-Target effects of CRISPR/Cas-derived RNA-guided endonucleases and nickases
    • Cho, S.W., et al. Analysis of off-Target effects of CRISPR/Cas-derived RNA-guided endonucleases and nickases. Genome Res. 24, 132-141 (2014
    • (2014) Genome Res , vol.24 , pp. 132-141
    • Cho, S.W.1
  • 21
    • 84884165315 scopus 로고    scopus 로고
    • DNA targeting specificity of RNA-guided Cas9 nucleases
    • Hsu, P.D., et al. DNA targeting specificity of RNA-guided Cas9 nucleases. Nat. Biotechnol. 31, 827-832 (2013
    • (2013) Nat. Biotechnol , vol.31 , pp. 827-832
    • Hsu, P.D.1
  • 22
    • 84903138336 scopus 로고    scopus 로고
    • CRISPR/Cas9 systems have off-Target activity with insertions or deletions between target DNA and guide RNA sequences
    • Lin, Y., et al. CRISPR/Cas9 systems have off-Target activity with insertions or deletions between target DNA and guide RNA sequences. Nucleic Acids Res. 42, 7473-7485 (2014
    • (2014) Nucleic Acids Res , vol.42 , pp. 7473-7485
    • Lin, Y.1
  • 23
    • 67649757162 scopus 로고    scopus 로고
    • Chromosomal translocations induced at specified loci in human stem cells
    • Brunet, E., et al. Chromosomal translocations induced at specified loci in human stem cells. Proc. Natl. Acad. Sci. USA 106, 10620-10625 (2009
    • (2009) Proc. Natl. Acad. Sci. USA , vol.106 , pp. 10620-10625
    • Brunet, E.1
  • 24
    • 74949133880 scopus 로고    scopus 로고
    • Targeted chromosomal deletions in human cells using zinc finger nucleases
    • Lee, H.J., Kim, E. & Kim, J.S. Targeted chromosomal deletions in human cells using zinc finger nucleases. Genome Res. 20, 81-89 (2010
    • (2010) Genome Res , vol.20 , pp. 81-89
    • Lee, H.J.1    Kim, E.2    Kim, J.S.3
  • 25
    • 84863275797 scopus 로고    scopus 로고
    • Targeted chromosomal duplications and inversions in the human genome using zinc finger nucleases
    • Lee, H.J., Kweon, J., Kim, E., Kim, S. & Kim, J.S. Targeted chromosomal duplications and inversions in the human genome using zinc finger nucleases. Genome Res. 22, 539-548 (2012
    • (2012) Genome Res , vol.22 , pp. 539-548
    • Lee, H.J.1    Kweon, J.2    Kim, E.3    Kim, S.4    Kim, J.S.5
  • 26
    • 84896929630 scopus 로고    scopus 로고
    • Improving CRISPR-Cas nuclease specificity using truncated guide RNAs
    • Fu, Y., Sander, J.D., Reyon, D., Cascio, V.M. & Joung, J.K. Improving CRISPR-Cas nuclease specificity using truncated guide RNAs. Nat. Biotechnol. 32, 279-284 (2014
    • (2014) Nat. Biotechnol , vol.32 , pp. 279-284
    • Fu, Y.1    Sander, J.D.2    Reyon, D.3    Cascio, V.M.4    Joung, J.K.5
  • 27
    • 84884288934 scopus 로고    scopus 로고
    • Double nicking by RNA-guided CRISPR Cas9 for enhanced genome editing specificity
    • Ran, F.A., et al. Double nicking by RNA-guided CRISPR Cas9 for enhanced genome editing specificity. Cell 154, 1380-1389 (2013
    • (2013) Cell , vol.154 , pp. 1380-1389
    • Ran, F.A.1
  • 28
    • 84884160273 scopus 로고    scopus 로고
    • CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering
    • Mali, P., et al. CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering. Nat. Biotechnol. 31, 833-838 (2013
    • (2013) Nat. Biotechnol , vol.31 , pp. 833-838
    • Mali, P.1
  • 29
    • 84902204289 scopus 로고    scopus 로고
    • Dimeric CRISPR RNA-guided FokI nucleases for highly specific genome editing
    • Tsai, S.Q., et al. Dimeric CRISPR RNA-guided FokI nucleases for highly specific genome editing. Nat. Biotechnol. 32, 569-576 (2014
    • (2014) Nat. Biotechnol , vol.32 , pp. 569-576
    • Tsai, S.Q.1
  • 30
    • 84902210542 scopus 로고    scopus 로고
    • Fusion of catalytically inactive Cas9 to FokI nuclease improves the specificity of genome modification
    • Guilinger, J.P., Thompson, D.B. & Liu, D.R. Fusion of catalytically inactive Cas9 to FokI nuclease improves the specificity of genome modification. Nat. Biotechnol. 32, 577-582 (2014
    • (2014) Nat. Biotechnol , vol.32 , pp. 577-582
    • Guilinger, J.P.1    Thompson, D.B.2    Liu, D.R.3
  • 31
    • 84901834420 scopus 로고    scopus 로고
    • Highly efficient RNA-guided genome editing in human cells via delivery of purified Cas9 ribonucleoproteins
    • Kim, S., Kim, D., Cho, S.W., Kim, J. & Kim, J.S. Highly efficient RNA-guided genome editing in human cells via delivery of purified Cas9 ribonucleoproteins. Genome Res. 24, 1012-1019 (2014
    • (2014) Genome Res , vol.24 , pp. 1012-1019
    • Kim, S.1    Kim, D.2    Cho, S.W.3    Kim, J.4    Kim, J.S.5
  • 32
    • 84901843996 scopus 로고    scopus 로고
    • Gene disruption by cell-penetrating peptide-mediated delivery of Cas9 protein and guide RNA
    • Ramakrishna, S., et al. Gene disruption by cell-penetrating peptide-mediated delivery of Cas9 protein and guide RNA. Genome Res. 24, 1020-1027 (2014
    • (2014) Genome Res , vol.24 , pp. 1020-1027
    • Ramakrishna, S.1
  • 33
    • 80052851832 scopus 로고    scopus 로고
    • Ebola virus entry requires the cholesterol transporter Niemann-Pick C1
    • Carette, J.E., et al. Ebola virus entry requires the cholesterol transporter Niemann-Pick C1. Nature 477, 340-343 (2011
    • (2011) Nature , vol.477 , pp. 340-343
    • Carette, J.E.1
  • 34
    • 84874663256 scopus 로고    scopus 로고
    • TALENs and ZFNs are associated with different mutation signatures
    • Kim, Y., Kweon, J. & Kim, J.S. TALENs and ZFNs are associated with different mutation signatures. Nat. Methods 10, 185 (2013
    • (2013) Nat. Methods , vol.10 , pp. 185
    • Kim, Y.1    Kweon, J.2    Kim, J.S.3
  • 35
    • 78651271733 scopus 로고    scopus 로고
    • Integrative genomics viewer
    • Robinson, J.T., et al. Integrative genomics viewer. Nat. Biotechnol. 29, 24-26 (2011
    • (2011) Nat. Biotechnol , vol.29 , pp. 24-26
    • Robinson, J.T.1
  • 36
    • 84896308706 scopus 로고    scopus 로고
    • Cas-OFFinder a fast and versatile algorithm that searches for potential off-Target sites of Cas9 RNA-guided endonucleases
    • Bae, S., Park, J. & Kim, J.S. Cas-OFFinder: a fast and versatile algorithm that searches for potential off-Target sites of Cas9 RNA-guided endonucleases. Bioinformatics 35, 1473-1475 (2014
    • (2014) Bioinformatics , vol.35 , pp. 1473-1475
    • Bae, S.1    Park, J.2    Kim, J.S.3
  • 37
    • 84892897176 scopus 로고    scopus 로고
    • Genotyping with CRISPR-Cas-derived RNA-guided endonucleases
    • Kim, J.M., Kim, D., Kim, S. & Kim, J.S. Genotyping with CRISPR-Cas-derived RNA-guided endonucleases. Nat. Commun. 5, 3157 (2014
    • (2014) Nat. Commun , vol.5 , pp. 3157
    • Kim, J.M.1    Kim, D.2    Kim, S.3    Kim, J.S.4
  • 38
    • 84903943282 scopus 로고    scopus 로고
    • Whole-genome sequencing analysis reveals high specificity of CRISPR/Cas9 and TALEN-based genome editing in human iPSCs
    • Smith, C., et al. Whole-genome sequencing analysis reveals high specificity of CRISPR/Cas9 and TALEN-based genome editing in human iPSCs. Cell Stem Cell 15, 12-13 (2014
    • (2014) Cell Stem Cell , vol.15 , pp. 12-13
    • Smith, C.1
  • 39
    • 84904010334 scopus 로고    scopus 로고
    • Low incidence of off-Target mutations in individual CRISPR-Cas9 and TALEN targeted human stem cell clones detected by whole-genome sequencing
    • Veres, A., et al. Low incidence of off-Target mutations in individual CRISPR-Cas9 and TALEN targeted human stem cell clones detected by whole-genome sequencing. Cell Stem Cell 15, 27-30 (2014
    • (2014) Cell Stem Cell , vol.15 , pp. 27-30
    • Veres, A.1
  • 40
    • 84904018481 scopus 로고    scopus 로고
    • What's changed with genome editing?
    • Tsai, S.Q. & Joung, J.K. What's changed with genome editing? Cell Stem Cell 15, 3-4 (2014
    • (2014) Cell Stem Cell , vol.15 , pp. 3-4
    • Tsai, S.Q.1    Joung, J.K.2
  • 41
    • 84903545084 scopus 로고    scopus 로고
    • Genome-wide analysis reveals characteristics of off-Target sites bound by the Cas9 endonuclease
    • Kuscu, C., Arslan, S., Singh, R., Thorpe, J. & Adli, M. Genome-wide analysis reveals characteristics of off-Target sites bound by the Cas9 endonuclease. Nat. Biotechnol. 32, 677-683 (2014
    • (2014) Nat. Biotechnol , vol.32 , pp. 677-683
    • Kuscu, C.1    Arslan, S.2    Singh, R.3    Thorpe, J.4    Adli, M.5
  • 42
    • 84902095352 scopus 로고    scopus 로고
    • Genome-wide binding of the CRISPR endonuclease Cas9 in mammalian cells
    • Wu, X., et al. Genome-wide binding of the CRISPR endonuclease Cas9 in mammalian cells. Nat. Biotechnol. 32, 670-676 (2014
    • (2014) Nat. Biotechnol , vol.32 , pp. 670-676
    • Wu, X.1
  • 43
    • 80052766645 scopus 로고    scopus 로고
    • An unbiased genome-wide analysis of zinc-finger nuclease specificity
    • Gabriel, R., et al. An unbiased genome-wide analysis of zinc-finger nuclease specificity. Nat. Biotechnol. 29, 816-823 (2011
    • (2011) Nat. Biotechnol , vol.29 , pp. 816-823
    • Gabriel, R.1
  • 44
    • 84923275611 scopus 로고    scopus 로고
    • Genome-wide detection of DNA double-stranded breaks induced by engineered nucleases
    • 15 December 2014
    • Frock, R.L., et al. Genome-wide detection of DNA double-stranded breaks induced by engineered nucleases. Nat. Biotechnol. doi: 10.1038/nbt.3101 (15 December 2014
    • Nat. Biotechnol
    • Frock, R.L.1
  • 45
    • 84923266604 scopus 로고    scopus 로고
    • GUIDE-seq enables genome-wide profiling of off-Target cleavage by CRISPR-Cas nucleases
    • 16 December 2014
    • Tsai, S.Q., et al. GUIDE-seq enables genome-wide profiling of off-Target cleavage by CRISPR-Cas nucleases. Nat. Biotechnol. doi: 10.1038/nbt.3117 (16 December 2014
    • Nat. Biotechnol
    • Tsai, S.Q.1
  • 46
    • 44949231424 scopus 로고    scopus 로고
    • Analyzing real-Time PCR data by the comparative CT method
    • Schmittgen, T.D. & Livak, K.J. Analyzing real-Time PCR data by the comparative CT method. Nat. Protoc. 3, 1101-1108 (2008
    • (2008) Nat. Protoc , vol.3 , pp. 1101-1108
    • Schmittgen, T.D.1    Livak, K.J.2
  • 47
    • 84881018840 scopus 로고    scopus 로고
    • Isaac: Ultra-fast whole-genome secondary analysis on Illumina sequencing platforms
    • Raczy, C., et al. Isaac: ultra-fast whole-genome secondary analysis on Illumina sequencing platforms. Bioinformatics 29, 2041-2043 (2013
    • (2013) Bioinformatics , vol.29 , pp. 2041-2043
    • Raczy, C.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.