Massively parallel Cas13 screens reveal principles for guide RNA design
暂无分享,去创建一个
Neville E. Sanjana | H. Wessels | M. Legut | Zharko Daniloski | Hans-Hermann Wessels | Mateusz Legut | Alejandro Méndez-Mancilla | Xinyi Guo | Xinyi Guo | A. Méndez-Mancilla | Zharko Daniloski
[1] Sven Laur,et al. Robust rank aggregation for gene list integration and meta-analysis , 2012, Bioinform..
[2] Aviv Regev,et al. RNA targeting with CRISPR–Cas13 , 2017, Nature.
[3] Aviv Regev,et al. Nucleic acid detection with CRISPR-Cas13a/C2c2 , 2017, Science.
[4] Qi Chen,et al. Two HEPN domains dictate CRISPR RNA maturation and target cleavage in Cas13d , 2019, Nature Communications.
[5] Meagan E. Sullender,et al. Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9 , 2015, Nature Biotechnology.
[6] Lei S. Qi,et al. CRISPR-mediated live imaging of genome editing and transcription , 2019, Science.
[7] Dmitry Lyumkis,et al. Structural Basis for the RNA-Guided Ribonuclease Activity of CRISPR-Cas13d , 2018, Cell.
[8] Daniel Riordan,et al. Direct capture of CRISPR guides enables scalable, multiplexed, and multi-omic Perturb-seq , 2018, bioRxiv.
[9] Sergey A. Shmakov,et al. Cas13b is a Type VI-B CRISPR-associated RNA-Guided RNase differentially regulated by accessory proteins Csx27 and Csx28 , 2016, bioRxiv.
[10] Jun Ma,et al. The Molecular Architecture for RNA-Guided RNA Cleavage by Cas13a , 2017, Cell.
[11] Douglas M. Anderson,et al. Targeting Toxic Nuclear RNA Foci with CRISPR-Cas13 to Treat Myotonic Dystrophy , 2019, bioRxiv.
[12] James J. Collins,et al. Multiplexed and portable nucleic acid detection platform with Cas13, Cas12a, and Csm6 , 2018, Science.
[13] G. Carmichael,et al. Dynamic Imaging of RNA in Living Cells by CRISPR-Cas13 Systems. , 2019, Molecular cell.
[14] CRISPR-Cas13d mediates robust RNA virus interference in plants , 2019, Genome Biology.
[15] Max J. Kellner,et al. RNA editing with CRISPR-Cas13 , 2017, Science.
[16] Vikram Agarwal,et al. Predicting microRNA targeting efficacy in Drosophila , 2017, Genome Biology.
[17] L. Marraffini,et al. RNA Guide Complementarity Prevents Self-Targeting in Type VI CRISPR Systems. , 2018, Molecular cell.
[18] J. Darnell,et al. Cell type-specific CLIP reveals that NOVA regulates cytoskeleton interactions in motoneurons , 2018, Genome Biology.
[19] Peter F. Stadler,et al. ViennaRNA Package 2.0 , 2011, Algorithms for Molecular Biology.
[20] Douglas M. Anderson,et al. Targeted Cleavage and Polyadenylation of RNA by CRISPR-Cas13 , 2019, bioRxiv.
[21] M. Reinders,et al. A comparison of automatic cell identification methods for single-cell RNA sequencing data , 2019, Genome Biology.
[22] A. Cheng,et al. CRISPR artificial splicing factors , 2018, bioRxiv.
[23] Jan Krüger,et al. RNAhybrid: microRNA target prediction easy, fast and flexible , 2006, Nucleic Acids Res..
[24] Eric S. Lander,et al. C2c2 is a single-component programmable RNA-guided RNA-targeting CRISPR effector , 2016, Science.
[25] C. Chiang,et al. Targeted mRNA demethylation using an engineered dCas13b-ALKBH5 fusion protein , 2019, bioRxiv.
[26] Aviad Tsherniak,et al. Improved estimation of cancer dependencies from large-scale RNAi screens using model-based normalization and data integration , 2018, Nature Communications.
[27] Kira S. Makarova,et al. Cas13d is a compact RNA-targeting type VI CRISPR effector positively modulated by a WYL domain-containing accessory protein , 2018, Molecular cell.
[28] Alexandro E. Trevino,et al. Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex , 2014, Nature.
[29] L. Marraffini,et al. Cas13-induced cellular dormancy prevents the rise of CRISPR-resistant bacteriophage , 2019, Nature.
[30] Ping-Chih Ho,et al. Fifty Shades of α-Ketoglutarate on Cellular Programming. , 2019, Molecular cell.
[31] S. Konermann,et al. Transcriptome Engineering with RNA-Targeting Type VI-D CRISPR Effectors , 2018, Cell.
[32] Michel R. Klein,et al. Metabolite changes in blood predict the onset of tuberculosis , 2018, Nature Communications.
[33] Anne-Marie Alleaume,et al. Exon Junction Complexes Show a Distributional Bias toward Alternatively Spliced mRNAs and against mRNAs Coding for Ribosomal Proteins , 2016, Cell reports.
[34] Akshay Tambe,et al. RNA Binding and HEPN-Nuclease Activation Are Decoupled in CRISPR-Cas13a. , 2018, Cell reports.
[35] Andrew E. Jaffe,et al. Bioinformatics Applications Note Gene Expression the Sva Package for Removing Batch Effects and Other Unwanted Variation in High-throughput Experiments , 2022 .
[36] Jennifer A. Doudna,et al. Two distinct RNase activities of CRISPR-C2c2 enable guide-RNA processing and RNA detection , 2016, Nature.
[37] Neville E. Sanjana,et al. Improved vectors and genome-wide libraries for CRISPR screening , 2014, Nature Methods.
[38] Hugues Roest Crollius,et al. CLIP-seq of eIF4AIII reveals transcriptome-wide mapping of the human exon junction complex , 2012, Nature Structural &Molecular Biology.
[39] Meagan E. Sullender,et al. Rational design of highly active sgRNAs for CRISPR-Cas9–mediated gene inactivation , 2014, Nature Biotechnology.
[40] W. Huber,et al. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.
[41] Neville E. Sanjana,et al. Genome-Scale CRISPR-Cas9 Knockout Screening in Human Cells , 2014, Science.
[42] Hayden C. Metsky,et al. Programmable Inhibition and Detection of RNA Viruses Using Cas13. , 2019, Molecular cell.
[43] M. Moreno-Mateos,et al. CRISPR-Cas13d induces efficient mRNA knock-down in animal embryos , 2020, bioRxiv.
[44] Cole Trapnell,et al. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome , 2009, Genome Biology.
[45] Christopher R. Sibley,et al. A systems view of spliceosomal assembly and branchpoints with iCLIP , 2019, Nature Structural & Molecular Biology.