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      High-throughput genetic screens using CRISPR–Cas9 system

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      https://www.riss.kr/link?id=A105927466

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      다국어 초록 (Multilingual Abstract)

      The CRISPR–Cas9 system is a powerful tool for genome engineering, and its programmability and simplicity have enabled various types of gene manipulation such as gene disruption and transcriptional and epigenetic perturbation. Particularly, CRISPR-based pooled libraries facilitate high-throughput screening for functional regulatory elements in the human genome. In this review, we describe recent advances in CRISPR–Cas9 technology and its use in high-throughput genetic screening. We also discuss its potential for drug target discovery and current challenges of this technique in biomedical research.
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      The CRISPR–Cas9 system is a powerful tool for genome engineering, and its programmability and simplicity have enabled various types of gene manipulation such as gene disruption and transcriptional and epigenetic perturbation. Particularly, CRISPR-ba...

      The CRISPR–Cas9 system is a powerful tool for genome engineering, and its programmability and simplicity have enabled various types of gene manipulation such as gene disruption and transcriptional and epigenetic perturbation. Particularly, CRISPR-based pooled libraries facilitate high-throughput screening for functional regulatory elements in the human genome. In this review, we describe recent advances in CRISPR–Cas9 technology and its use in high-throughput genetic screening. We also discuss its potential for drug target discovery and current challenges of this technique in biomedical research.

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      참고문헌 (Reference)

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      5 Shimatani Z, "Targeted base editing in rice and tomato using a CRISPR-Cas9 cytidine deaminase fusion" 35 : 441-443, 2017

      6 Lei Y, "Targeted DNA methylation in vivo using an engineered dCas9-MQ1 fusion protein" 8 : 16026-, 2017

      7 박동석, "Targeted Base Editing via RNA-Guided Cytidine Deaminases in Xenopus laevis Embryos" 한국분자세포생물학회 40 (40): 823-827, 2017

      8 Ma Y, "Targeted AID-mediated mutagenesis (TAM) enables efficient genomic diversification in mammalian cells" 13 : 1029-1035, 2016

      9 Kim Y, "TALENs and ZFNs are associated with different mutation signatures" 10 : 185-, 2013

      10 Carpenter AE, "Systematic genome-wide screens of gene function" 5 : 11-22, 2004

      1 Winter J, "caRpools: an R package for exploratory data analysis and documentation of pooled CRISPR/Cas9 screens" 32 : 632-634, 2016

      2 Kaelin WG Jr, "Use and abuse of RNAi to study mammalian gene function" 337 : 421-422, 2012

      3 Boehm JS, "Towards systematic functional characterization of cancer genomes" 12 : 487-498, 2011

      4 Cho SW, "Targeted genome engineering in human cells with the Cas9 RNA-guided endonuclease" 31 : 230-232, 2013

      5 Shimatani Z, "Targeted base editing in rice and tomato using a CRISPR-Cas9 cytidine deaminase fusion" 35 : 441-443, 2017

      6 Lei Y, "Targeted DNA methylation in vivo using an engineered dCas9-MQ1 fusion protein" 8 : 16026-, 2017

      7 박동석, "Targeted Base Editing via RNA-Guided Cytidine Deaminases in Xenopus laevis Embryos" 한국분자세포생물학회 40 (40): 823-827, 2017

      8 Ma Y, "Targeted AID-mediated mutagenesis (TAM) enables efficient genomic diversification in mammalian cells" 13 : 1029-1035, 2016

      9 Kim Y, "TALENs and ZFNs are associated with different mutation signatures" 10 : 185-, 2013

      10 Carpenter AE, "Systematic genome-wide screens of gene function" 5 : 11-22, 2004

      11 Han K, "Synergistic drug combinations for cancer identified in a CRISPR screen for pairwise genetic interactions" 35 : 463-474, 2017

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      21 Gaudelli NM, "Programmable base editing of A*T to G*C in genomic DNA without DNA cleavage" 551 : 464-471, 2017

      22 Zong Y, "Precise base editing in rice, wheat and maize with a Cas9-cytidine deaminase fusion" 35 : 438-440, 2017

      23 Dixit A, "Perturb-Seq: dissecting molecular circuits with scalable single-cell RNA profiling of pooled genetic screens" 167 : 1853-1866.e17, 2016

      24 Najm FJ, "Orthologous CRISPR-Cas9 enzymes for combinatorial genetic screens" 36 : 179-, 2017

      25 Dahlman JE, "Orthogonal gene knockout and activation with a catalytically active Cas9 nuclease" 33 : 1159-1161, 2015

      26 Doench JG, "Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9" 34 : 184-191, 2016

      27 Ma H, "Multiplexed labeling of genomic loci with dCas9 and engineered sgRNAs using CRISPRainbow" 34 : 528-530, 2016

      28 Cong L, "Multiplex genome engineering using CRISPR/Cas systems" 339 : 819-823, 2013

      29 Wang KC, "Molecular mechanisms of long noncoding RNAs" 43 : 904-914, 2011

      30 Li W, "MAGeCK enables robust identification of essential genes from genome-scale CRISPR/Cas9 knockout screens" 15 : 554-, 2014

      31 Kwon DY, "Locus-specific histone deacetylation using a synthetic CRISPR-Cas9-based HDAC" 8 : 15315-, 2017

      32 Manguso RT, "In vivo CRISPR screening identifies Ptpn2 as a cancer immunotherapy target" 547 : 413-418, 2017

      33 Sanjana NE, "Improved vectors and genome-wide libraries for CRISPR screening" 11 : 783-784, 2014

      34 Patel SJ, "Identification of essential genes for cancer immunotherapy" 548 : 537-542, 2017

      35 Wang T, "Identification and characterization of essential genes in the human genome" 350 : 1096-1101, 2015

      36 Kim K, "Highly efficient RNA-guided base editing in mouse embryos" 35 : 435-437, 2017

      37 Chavez A, "Highly efficient Cas9-mediated transcriptional programming" 12 : 326-328, 2015

      38 Zhou Y, "High-throughput screening of a CRISPR/Cas9 library for functional genomics in human cells" 509 : 487-491, 2014

      39 Sanjana NE, "High-resolution interrogation of functional elements in the noncoding genome" 353 : 1545-1549, 2016

      40 Hart T, "High-resolution CRISPR screens reveal fitness genes and genotype-specific cancer liabilities" 163 : 1515-1526, 2015

      41 Diaz AA, "HiTSelect: a comprehensive tool for high-complexity-pooled screen analysis" 43 : e16-, 2015

      42 Perez AR, "GuideScan software for improved single and paired CRISPR guide RNA design" 35 : 347-349, 2017

      43 Koike-Yusa H, "Genome-wide recessive genetic screening in mammalian cells with a lentiviral CRISPR-guide RNA library" 32 : 267-273, 2014

      44 Virreira Winter S, "Genome-wide CRISPR screen reveals novel host factors required for Staphylococcus aureus alpha-hemolysin-mediated toxicity" 6 : 24242-, 2016

      45 Konermann S, "Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex" 517 : 583-588, 2015

      46 Zhu S, "Genome-scale deletion screening of human long non-coding RNAs using a paired-guide RNA CRISPR-Cas9 library" 34 : 1279-1286, 2016

      47 Joung J, "Genome-scale activation screen identifies a lncRNA locus regulating a gene neighbourhood" 548 : 343-346, 2017

      48 Gilbert LA, "Genome-scale CRISPR-mediated control of gene repression and activation" 159 : 647-661, 2014

      49 Shalem O, "Genome-scale CRISPR-Cas9 knockout screening in human cells" 343 : 84-87, 2014

      50 Joung J, "Genome-scale CRISPR-Cas9 knockout and transcriptional activation screening" 12 : 828-863, 2017

      51 Wang T, "Genetic screens in human cells using the CRISPR-Cas9 system" 343 : 80-84, 2014

      52 Wang T, "Gene essentiality profiling reveals gene networks and synthetic lethal interactions with oncogenic Ras" 168 : 890-903.e15, 2017

      53 Meier JA, "GUIDES: sgRNA design for loss-of-function screens" 14 : 831-832, 2017

      54 Kweon J, "Fusion guide RNAs for orthogonal gene manipulation with Cas9 and Cpf1" 8 : 1723-, 2017

      55 Korkmaz G, "Functional genetic screens for enhancer elements in the human genome using CRISPR-Cas9" 34 : 192-198, 2016

      56 Kearns NA, "Functional annotation of native enhancers with a Cas9-histone demethylase fusion" 12 : 401-403, 2015

      57 Hart T, "Evaluation and design of genome-wide CRISPR/SpCas9 knockout screens" 7 : 2719-2727, 2017

      58 Hilton IB, "Epigenome editing by a CRISPR-Cas9-based acetyltransferase activates genes from promoters and enhancers" 33 : 510-517, 2015

      59 Bibikova M, "Enhancing gene targeting with designed zinc finger nucleases" 300 : 764-, 2003

      60 Zalatan JG, "Engineering complex synthetic transcriptional programs with CRISPR RNA scaffolds" 160 : 339-350, 2015

      61 Hwang WY, "Efficient genome editing in zebrafish using a CRISPR-Cas system" 31 : 227-229, 2013

      62 Liu XS, "Editing DNA methylation in the mammalian genome" 167 : 233-247.e17, 2016

      63 Trumbach D, "ENCoRE: an efficient software for CRISPR screens identifies new players in extrinsic apoptosis" 18 : 905-, 2017

      64 Jaitin DA, "Dissecting immune circuits by linking CRISPR-pooled screens with single-cell RNA-Seq" 167 : 1883-1896.e15, 2016

      65 Hess GT, "Directed evolution using dCas9-targeted somatic hypermutation in mammalian cells" 13 : 1036-1042, 2016

      66 List M, "Comprehensive analysis of high-throughput screens with HiTSeekR" 44 : 6639-6648, 2016

      67 Horlbeck MA, "Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation" 2016

      68 Porteus MH, "Chimeric nucleases stimulate gene targeting in human cells" 300 : 763-, 2003

      69 Liu SJ, "CRISPRi-based genome-scale identification of functional long noncoding RNA loci in human cells" 355 : 7111-, 2017

      70 Jeong HH, "CRISPRcloud: a secure cloud-based pipeline for CRISPR pooled screen deconvolution" 33 : 2963-2965, 2017

      71 Winter J, "CRISPRAnalyzeR: interactive analysis, annotation and documentation of pooled CRISPR screens" 2017

      72 Gilbert LA, "CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes" 154 : 442-451, 2013

      73 Klann TS, "CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome" 35 : 561-568, 2017

      74 Heigwer F, "CRISPR library designer (CLD): software for multispecies design of single guide RNA libraries" 17 : 55-, 2016

      75 Maeder ML, "CRISPR RNA-guided activation of endogenous human genes" 10 : 977-979, 2013

      76 Canver MC, "BCL11A enhancer dissection by Cas9-mediated in situ saturating mutagenesis" 527 : 192-197, 2015

      77 Hart T, "BAGEL: a computational framework for identifying essential genes from pooled library screens" 17 : 164-, 2016

      78 Consortium EP, "An integrated encyclopedia of DNA elements in the human genome" 489 : 57-74, 2012

      79 Doench JG, "Am I ready for CRISPR? A user's guide to genetic screens" 19 : 67-80, 2018

      80 Tanenbaum ME, "A protein-tagging system for signal amplification in gene expression and fluorescence imaging" 159 : 635-646, 2014

      81 Adamson B, "A multiplexed single-cell CRISPR screening platform enables systematic dissection of the unfolded protein response" 167 : 1867-1882.e21, 2016

      82 Pan D, "A major chromatin regulator determines resistance of tumor cells to T cell-mediated killing" 2018

      83 Kim Y, "A library of TAL effector nucleases spanning the human genome" 31 : 251-258, 2013

      84 Park RJ, "A genome-wide CRISPR screen identifies a restricted set of HIV host dependency factors" 49 : 193-203, 2017

      85 Miller JC, "A TALE nuclease architecture for efficient genome editing" 29 : 143-148, 2011

      86 Ma H, "A CRISPR-based screen identifies genes essential for West-Nile-Virus-induced cell death" 12 : 673-683, 2015

      87 Zhang R, "A CRISPR screen defines a signal peptide processing pathway required by flaviviruses" 535 : 164-168, 2016

      88 Tzelepis K, "A CRISPR dropout screen identifies genetic vulnerabilities and therapeutic targets in acute myeloid leukemia" 17 : 1193-1205, 2016

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      학술지 이력

      학술지 이력
      연월일 이력구분 이력상세 등재구분
      2023 평가예정 해외DB학술지평가 신청대상 (해외등재 학술지 평가)
      2020-01-01 평가 등재학술지 유지 (해외등재 학술지 평가) KCI등재
      2010-01-01 평가 등재학술지 유지 (등재유지) KCI등재
      2008-01-01 평가 등재학술지 유지 (등재유지) KCI등재
      2006-01-01 평가 등재학술지 유지 (등재유지) KCI등재
      2004-01-01 평가 등재학술지 유지 (등재유지) KCI등재
      2001-01-01 평가 등재학술지 선정 (등재후보2차) KCI등재
      1998-07-01 평가 등재후보학술지 선정 (신규평가) KCI등재후보
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      학술지 인용정보
      기준연도 WOS-KCI 통합IF(2년) KCIF(2년) KCIF(3년)
      2016 1.96 0.2 1.44
      KCIF(4년) KCIF(5년) 중심성지수(3년) 즉시성지수
      1.07 0.87 0.439 0.05
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