TALENoffer: genome-wide TALEN off-target prediction

被引：69
|
作者：
Grau, Jan [1 ]
Boch, Jens [2 ]
Posch, Stefan [1 ]
机构：
[1] Univ Halle Wittenberg, Inst Comp Sci, D-06099 Halle, Saale, Germany
[2] Univ Halle Wittenberg, Dept Genet, Inst Biol, D-06099 Halle, Saale, Germany
来源：
BIOINFORMATICS | 2013年 / 29卷 / 22期
关键词：
D O I：
10.1093/bioinformatics/btt501
中图分类号：
Q5 [生物化学];
学科分类号：
071010 ; 081704 ;
摘要：
Transcription activator-like effector nucleases (TALENs) have become an accepted tool for targeted mutagenesis, but undesired off-targets remain an important issue. We present TALENoffer, a novel tool for the genome-wide prediction of TALEN off-targets. We show that TALENoffer successfully predicts known off-targets of engineered TALENs and yields a competitive runtime, scanning complete mammalian genomes within a few minutes.
引用
收藏
页码：2931 / 2932
页数：2
相关论文
共 50 条
  • [41] Genome-wide determination of on-target and off-target characteristics for RNA-guided DNA methylation by dCas9 methyltransferases
    Lin, Lin
    Liu, Yong
    Xu, Fengping
    Huang, Jinrong
    Daugaard, Tina Fuglsang
    Petersen, Trine Skov
    Hansen, Bettina
    Ye, Lingfei
    Zhou, Qing
    Fang, Fang
    Yang, Ling
    Li, Shengting
    Floe, Lasse
    Jensen, Kristopher Torp
    Shrock, Ellen
    Chen, Fang
    Yang, Huanming
    wang, Jian
    Liu, Xin
    Xu, Xun
    Bolund, Lars
    Nielsen, Anders Lade
    Luo, Yonglun
    GIGASCIENCE, 2018, 7 (03): : 1 - 19
  • [42] Genome-wide Mapping of Off-Target Events in Single-Stranded Oligodeoxynucleotide-Mediated Gene Repair Experiments
    Radecke, Sarah
    Schwarz, Klaus
    Radecke, Frank
    MOLECULAR THERAPY, 2018, 26 (01) : 115 - 131
  • [43] Digenome-seq: genome-wide profiling of CRISPR-Cas9 off-target effects in human cells
    Kim, Daesik
    Bae, Sangsu
    Park, Jeongbin
    Kim, Eunji
    Kim, Seokjoong
    Yu, Hye Ryeong
    Hwang, Jinha
    Kim, Jong-Il
    Kim, Jin-Soo
    NATURE METHODS, 2015, 12 (03) : 237 - +
  • [44] TAPE-seq is a cell-based method for predicting genome-wide off-target effects of prime editor
    Kwon, Jeonghun
    Kim, Minyoung
    Bae, Seungmin
    Jo, Anna
    Kim, Youngho
    Lee, Jungjoon K.
    NATURE COMMUNICATIONS, 2022, 13 (01)
  • [45] TAPE-seq is a cell-based method for predicting genome-wide off-target effects of prime editor
    Jeonghun Kwon
    Minyoung Kim
    Seungmin Bae
    Anna Jo
    Youngho Kim
    Jungjoon K. Lee
    Nature Communications, 13
  • [46] TAPE-seq is a Cell-Based Method for Predicting Genome-Wide Off-Target Effects of Prime Editor
    Lee, Jungjoon
    Kwon, Jeonghun
    Kim, Minyoung
    Bae, Seungmin
    Jo, Anna
    Kim, Youngho
    MOLECULAR THERAPY, 2023, 31 (04) : 783 - 783
  • [47] Digenome-seq: Genome-wide profiling of CRISPR-Cas9 off-target effects in human cells
    Kim D.
    Bae S.
    Park J.
    Kim E.
    Kim S.
    Yu H.R.
    Hwang J.
    Kim J.-I.
    Kim J.-S.
    Nature Methods, 2015, 12 (3) : 237 - 243
  • [48] Cas12a variants designed for lower genome-wide off-target effect through stringent PAM recognition
    Zhou, Jin
    Chen, Peng
    Wang, Hongjian
    Liu, Huan
    Li, Yongzheng
    Zhang, Youpeng
    Wu, Yankang
    Paek, Chonil
    Sun, Zaiqiao
    Lei, Jun
    Yin, Lei
    MOLECULAR THERAPY, 2022, 30 (01) : 244 - 255
  • [49] Identifying genome-wide off-target sites of CRISPR RNA-guided nucleases and deaminases with Digenome-seq
    Kim, Daesik
    Kang, Beum-Chang
    Kim, Jin-Soo
    NATURE PROTOCOLS, 2021, 16 (02) : 1170 - 1192
  • [50] Topologically associated domains genome-wide restrict the off-target activity of recombination activating gene 1/2 endonuclease
    Hu, Jiazhi
    Zhang, Yu
    Zhao, Lijuan
    Frock, Richard
    Du, Zhou
    Meyers, Robin M.
    Meng, Feilong
    Schatz, David G.
    Alt, Frederick W.
    CANCER IMMUNOLOGY RESEARCH, 2016, 4 (01)
12345