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Volumn 5, Issue September2016, 2016, Pages

Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation

Author keywords

[No Author keywords available]

Indexed keywords

CRISPR ASSOCIATED PROTEIN; OLIGONUCLEOTIDE; BACTERIAL PROTEIN; CAS9 ENDONUCLEASE STREPTOCOCCUS PYOGENES; ENDONUCLEASE; GUIDE RNA; NUCLEOSOME;

EID: 84994418123     PISSN: None     EISSN: 2050084X     Source Type: Journal    
DOI: 10.7554/eLife.19760     Document Type: Article
Times cited : (514)

References (60)
  • 3
    • 84977557474 scopus 로고    scopus 로고
    • Versatile in vivo regulation of tumor phenotypes by dCas9-mediated transcriptional perturbation
    • Braun CJ, Bruno PM, Horlbeck MA, Gilbert LA, Weissman JS, Hemann MT. 2016. Versatile in vivo regulation of tumor phenotypes by dCas9-mediated transcriptional perturbation. PNAS 113:E3892-E3900. doi: 10.1073/pnas.1600582113
    • (2016) PNAS , vol.113 , pp. E3892-E3900
    • Braun, C.J.1    Bruno, P.M.2    Horlbeck, M.A.3    Gilbert, L.A.4    Weissman, J.S.5    Hemann, M.T.6
  • 4
    • 84940501210 scopus 로고    scopus 로고
    • Unraveling CRISPR-Cas9 genome engineering parameters via a library-on-library approach
    • PMID: 26167643
    • Chari R, Mali P, Moosburner M, Church GM. 2015. Unraveling CRISPR-Cas9 genome engineering parameters via a library-on-library approach. Nature Methods 12: 823-826. doi: 10.1038/nmeth.3473, PMID: 26167643
    • (2015) Nature Methods , vol.12 , pp. 823-826
    • Chari, R.1    Mali, P.2    Moosburner, M.3    Church, G.M.4
  • 12
    • 84952636633 scopus 로고    scopus 로고
    • Optimizing sgRNA structure to improve CRISPR-Cas9 knockout efficiency
    • Dang Y, Jia G, Choi J, Ma H, Anaya E, Ye C, Shankar P, Wu H. 2015. Optimizing sgRNA structure to improve CRISPR-Cas9 knockout efficiency. Genome Biology 16:631-633. doi: 10.1186/s13059-015-0846-3
    • (2015) Genome Biology , vol.16 , pp. 631-633
    • Dang, Y.1    Jia, G.2    Choi, J.3    Ma, H.4    Anaya, E.5    Ye, C.6    Shankar, P.7    Wu, H.8
  • 15
    • 84865790047 scopus 로고    scopus 로고
    • An integrated encyclopedia of DNA elements in the human genome
    • PMID: 22955616
    • ENCODE Project Consortium. 2012. An integrated encyclopedia of DNA elements in the human genome. Nature 489: 57-74. doi: 10.1038/nature11247, PMID: 22955616
    • (2012) Nature , vol.489 , pp. 57-74
  • 21
    • 84905274395 scopus 로고    scopus 로고
    • Measuring error rates in genomic perturbation screens: Gold standards for human functional genomics
    • PMID: 24987113
    • Hart T, Brown KR, Sircoulomb F, Rottapel R, Moffat J. 2014. Measuring error rates in genomic perturbation screens: gold standards for human functional genomics. Molecular Systems Biology 10: 733. doi: 10.15252/msb.20145216, PMID: 24987113
    • (2014) Molecular Systems Biology , vol.10 , pp. 733
    • Hart, T.1    Brown, K.R.2    Sircoulomb, F.3    Rottapel, R.4    Moffat, J.5
  • 24
    • 84949032804 scopus 로고    scopus 로고
    • Nucleosomes Inhibit Cas9 Endonuclease Activity in Vitro
    • PMID: 26579937
    • Hinz JM, Laughery MF, Wyrick JJ. 2015. Nucleosomes Inhibit Cas9 Endonuclease Activity in Vitro. Biochemistry 54:7063-7066. doi: 10.1021/acs.biochem.5b01108, PMID: 26579937
    • (2015) Biochemistry , vol.54 , pp. 7063-7066
    • Hinz, J.M.1    Laughery, M.F.2    Wyrick, J.J.3
  • 26
    • 58549112996 scopus 로고    scopus 로고
    • Bioinformatics enrichment tools: Paths toward the comprehensive functional analysis of large gene lists
    • PMID: 19033363
    • Huang da W, Sherman BT, Lempicki RA. 2009. Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Research 37: 1-13. doi: 10.1093/nar/gkn923, PMID: 19033363
    • (2009) Nucleic Acids Research , vol.37 , pp. 1-13
    • Huang da, W.1    Sherman, B.T.2    Lempicki, R.A.3
  • 27
    • 16244401458 scopus 로고    scopus 로고
    • Regularization and variable selection via the elastic net
    • Zou H, Hastie T. 2005. Regularization and variable selection via the elastic net. Journal of the Royal Statistical Society: Series B 67: 301-320. doi: 10.1111/j.1467-9868.2005.00503.x
    • (2005) Journal of the Royal Statistical Society: Series B , vol.67 , pp. 301-320
    • Zou, H.1    Hastie, T.2
  • 28
    • 84971539053 scopus 로고    scopus 로고
    • Nucleosome breathing and remodeling constrain CRISPR-Cas9 function
    • PMID: 27130520
    • Isaac RS, Jiang F, Doudna JA, Lim WA, Narlikar GJ, Almeida R. 2016. Nucleosome breathing and remodeling constrain CRISPR-Cas9 function. eLife 5:e13450. doi: 10.7554/eLife.13450, PMID: 27130520
    • (2016) eLife , vol.5
    • Isaac, R.S.1    Jiang, F.2    Doudna, J.A.3    Lim, W.A.4    Narlikar, G.J.5    Almeida, R.6
  • 29
    • 84922535144 scopus 로고    scopus 로고
    • Multiplex CRISPR/Cas9-based genome engineering from a single lentiviral vector
    • PMID: 25122746
    • Kabadi AM, Ousterout DG, Hilton IB, Gersbach CA. 2014. Multiplex CRISPR/Cas9-based genome engineering from a single lentiviral vector. Nucleic Acids Research 42:e147. doi: 10.1093/nar/gku749, PMID: 25122746
    • (2014) Nucleic Acids Research , vol.42
    • Kabadi, A.M.1    Ousterout, D.G.2    Hilton, I.B.3    Gersbach, C.A.4
  • 30
    • 84879319702 scopus 로고    scopus 로고
    • Integrated platform for genome-wide screening and construction of high-density genetic interaction maps in mammalian cells
    • Kampmann M, Bassik MC, Weissman JS. 2013. Integrated platform for genome-wide screening and construction of high-density genetic interaction maps in mammalian cells. PNAS 110:E2317-E2326. doi: 10.1073/pnas.1307002110
    • (2013) PNAS , vol.110 , pp. E2317-E2326
    • Kampmann, M.1    Bassik, M.C.2    Weissman, J.S.3
  • 33
    • 84971006562 scopus 로고    scopus 로고
    • Programmable editing of a target base in genomic DNA without double-stranded DNA cleavage
    • PMID: 27096365
    • Komor AC, Kim YB, Packer MS, Zuris JA, Liu DR. 2016. Programmable editing of a target base in genomic DNA without double-stranded DNA cleavage. Nature 533: 420-424. doi: 10.1038/nature17946, PMID: 27096365
    • (2016) Nature , vol.533 , pp. 420-424
    • Komor, A.C.1    Kim, Y.B.2    Packer, M.S.3    Zuris, J.A.4    Liu, D.R.5
  • 35
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • PMID: 19261174
    • Langmead B, Trapnell C, Pop M, Salzberg SL. 2009. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biology 10:R25. doi: 10.1186/gb-2009-10-3-r25, PMID: 19261174
    • (2009) Genome Biology , vol.10 , pp. R25
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 36
    • 84927125938 scopus 로고    scopus 로고
    • Single-cell and multivariate approaches in genetic perturbation screens
    • PMID: 25446316
    • Liberali P, Snijder B, Pelkmans L. 2015. Single-cell and multivariate approaches in genetic perturbation screens. Nature Reviews Genetics 16: 18-32. doi: 10.1038/nrg3768, PMID: 25446316
    • (2015) Nature Reviews Genetics , vol.16 , pp. 18-32
    • Liberali, P.1    Snijder, B.2    Pelkmans, L.3
  • 39
    • 84884907424 scopus 로고    scopus 로고
    • CRISPR RNA-guided activation of endogenous human genes
    • PMID: 23892898
    • Maeder ML, Linder SJ, Cascio VM, Fu Y, Ho QH, Joung JK. 2013. CRISPR RNA-guided activation of endogenous human genes. Nature Methods 10: 977-979. doi: 10.1038/nmeth.2598, PMID: 23892898
    • (2013) Nature Methods , vol.10 , pp. 977-979
    • Maeder, M.L.1    Linder, S.J.2    Cascio, V.M.3    Fu, Y.4    Ho, Q.H.5    Joung, J.K.6
  • 42
    • 0035123701 scopus 로고    scopus 로고
    • Complete karyotype characterization of the K562 cell line by combined application of G-banding, multiplex-fluorescence in situ hybridization, fluorescence in situ hybridization, and comparative genomic hybridization
    • PMID: 11248328
    • Naumann S, Reutzel D, Speicher M, Decker HJ. 2001. Complete karyotype characterization of the K562 cell line by combined application of G-banding, multiplex-fluorescence in situ hybridization, fluorescence in situ hybridization, and comparative genomic hybridization. Leukemia Research 25: 313-322. doi: 10.1016/S0145-2126(00)00125-9, PMID: 11248328
    • (2001) Leukemia Research , vol.25 , pp. 313-322
    • Naumann, S.1    Reutzel, D.2    Speicher, M.3    Decker, H.J.4
  • 46
    • 84874687019 scopus 로고    scopus 로고
    • Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression
    • PMID: 23452860
    • Qi LS, Larson MH, Gilbert LA, Doudna JA, Weissman JS, Arkin AP, Lim WA. 2013. Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression. Cell 152: 1173-1183. doi: 10.1016/j.cell.2013.02.022, PMID: 23452860
    • (2013) Cell , vol.152 , pp. 1173-1183
    • Qi, L.S.1    Larson, M.H.2    Gilbert, L.A.3    Doudna, J.A.4    Weissman, J.S.5    Arkin, A.P.6    Lim, W.A.7
  • 47
    • 77951770756 scopus 로고    scopus 로고
    • BEDTools: A flexible suite of utilities for comparing genomic features
    • PMID: 20110278
    • Quinlan AR, Hall IM. 2010. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26:841-842. doi: 10.1093/bioinformatics/btq033, PMID: 20110278
    • (2010) Bioinformatics , vol.26 , pp. 841-842
    • Quinlan, A.R.1    Hall, I.M.2
  • 48
    • 84992189595 scopus 로고    scopus 로고
    • Optimizing sgRNA position markedly improves the efficiency of CRISPR/dCas9-mediated transcriptional repression
    • PMID: 27353328
    • Radzisheuskaya A, Shlyueva D, Müller I, Helin K. 2016. Optimizing sgRNA position markedly improves the efficiency of CRISPR/dCas9-mediated transcriptional repression. Nucleic Acids Research:gkw583. doi: 10.1093/nar/gkw583, PMID: 27353328
    • (2016) Nucleic Acids Research , pp. 583
    • Radzisheuskaya, A.1    Shlyueva, D.2    Müller, I.3    Helin, K.4
  • 50
    • 84928205754 scopus 로고    scopus 로고
    • High-throughput functional genomics using CRISPR-Cas9
    • PMID: 25854182
    • Shalem O, Sanjana NE, Zhang F. 2015. High-throughput functional genomics using CRISPR-Cas9. Nature Reviews Genetics 16: 299-311. doi: 10.1038/nrg3899, PMID: 25854182
    • (2015) Nature Reviews Genetics , vol.16 , pp. 299-311
    • Shalem, O.1    Sanjana, N.E.2    Zhang, F.3
  • 51
    • 84969916200 scopus 로고    scopus 로고
    • Long-term dual-color tracking of genomic loci by modified sgRNAs of the CRISPR/Cas9 system
    • PMID: 26850639
    • Shao S, Zhang W, Hu H, Xue B, Qin J, Sun C, Sun Y, Wei W, Sun Y. 2016. Long-term dual-color tracking of genomic loci by modified sgRNAs of the CRISPR/Cas9 system. Nucleic Acids Research 44:e86. doi: 10.1093/nar/gkw066, PMID: 26850639
    • (2016) Nucleic Acids Research , vol.44
    • Shao, S.1    Zhang, W.2    Hu, H.3    Xue, B.4    Qin, J.5    Sun, C.6    Sun, Y.7    Wei, W.8    Sun, Y.9
  • 52
    • 84908328232 scopus 로고    scopus 로고
    • A protein-tagging system for signal amplification in gene expression and fluorescence imaging
    • PMID: 25307933
    • Tanenbaum ME, Gilbert LA, Qi LS, Weissman JS, Vale RD. 2014. A protein-tagging system for signal amplification in gene expression and fluorescence imaging. Cell 159: 635-646. doi: 10.1016/j.cell.2014.09.039, PMID: 25307933
    • (2014) Cell , vol.159 , pp. 635-646
    • Tanenbaum, M.E.1    Gilbert, L.A.2    Qi, L.S.3    Weissman, J.S.4    Vale, R.D.5
  • 55
    • 84947471999 scopus 로고    scopus 로고
    • Identification and characterization of essential genes in the human genome
    • PMID: 26472758
    • Wang T, Birsoy K, Hughes NW, Krupczak KM, Post Y, Wei JJ, Lander ES, Sabatini DM. 2015. Identification and characterization of essential genes in the human genome. Science 350: 1096-1101. doi: 10.1126/science.aac7041, PMID: 26472758
    • (2015) Science , vol.350 , pp. 1096-1101
    • Wang, T.1    Birsoy, K.2    Hughes, N.W.3    Krupczak, K.M.4    Post, Y.5    Wei, J.J.6    Lander, E.S.7    Sabatini, D.M.8
  • 57
    • 0029042707 scopus 로고
    • Extensive amplification of bcr/abl fusion genes clustered on three marker chromosomes in human leukemic cell line K-562
    • PMID: 7769849
    • Wu SQ, Voelkerding KV, Sabatini L, Chen XR, Huang J, Meisner LF. 1995. Extensive amplification of bcr/abl fusion genes clustered on three marker chromosomes in human leukemic cell line K-562. Leukemia 9:858-862. PMID: 7769849
    • (1995) Leukemia , vol.9 , pp. 858-862
    • Wu, S.Q.1    Voelkerding, K.V.2    Sabatini, L.3    Chen, X.R.4    Huang, J.5    Meisner, L.F.6
  • 60
    • 84893819419 scopus 로고    scopus 로고
    • Sequence-specific inhibition of microRNA via CRISPR/CRISPRi system
    • PMID: 24487629
    • Zhao Y, Dai Z, Liang Y, Yin M, Ma K, He M, Ouyang H, Teng CB. 2014. Sequence-specific inhibition of microRNA via CRISPR/CRISPRi system. Scientific Reports 4: 3943. doi: 10.1038/srep03943, PMID: 24487629
    • (2014) Scientific Reports , vol.4 , pp. 3943
    • Zhao, Y.1    Dai, Z.2    Liang, Y.3    Yin, M.4    Ma, K.5    He, M.6    Ouyang, H.7    Teng, C.B.8


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.