CaRpools: An R package for exploratory data analysis and documentation of pooled CRISPR/Cas9 screens

Bioinformatics

Volumn 32, Issue 4, 2016, Pages 632-634

  Winter, Jan ^a   Breinig, Marco ^a   Heigwer, Florian ^a   Brügemann, Dirk ^a   Leible, Svenja ^a   Pelz, Oliver ^a   Zhan, Tianzuo ^a,b   Boutros, Michael ^a  

^a UNIVERSITY OF HEIDELBERG   (Germany)

^b UNIVERSITY OF HEIDELBERG   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

CRISPR CAS SYSTEM; DOCUMENTATION; GENE EDITING; GENOME; HIGH THROUGHPUT SEQUENCING; SOFTWARE;

CRISPR-CAS SYSTEMS; DOCUMENTATION; GENE EDITING; GENOME; HIGH-THROUGHPUT NUCLEOTIDE SEQUENCING; SOFTWARE;

EID: 84959908194     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btv617     Document Type: Article

References (9)

1. Boutros, M. et al. (2006) Analysis of cell-based RNAi screens. Genome Biol., 7, R66.
2. Diaz, A. A. et al. (2015) HiTSelect: a comprehensive tool for high-complexitypooled screen analysis. Nucleic Acids Res., 43, e16.
3. Koike-Yusa, H. et al. (2014) Genome-wide recessive genetic screening in mammalian cells with a lentiviral CRISPR-guide RNA library. Nat. Biotechnol., 32, 267-73.
4. Li, W. et al. (2014) MAGeCK enables robust identification of essential genes from genome-scale CRISPR/Cas9 knockout screens. Genome Biol., 15, 554.
5. Love, M. I. et al. (2014) Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol., 15, 550.
6. MacPherson, C. R. and Scherf, A. (2015) Flexible guide-RNA design for CRISPR applications using Protospacer Workbench. Nat. Biotechnol., 33, 805-806.
7. Pelz, O. et al. (2010) web cellHTS2: a web-application for the analysis of highthroughput screening data. BMC Bioinformatics, 11, 185.
8. Shalem, O. et al. (2014) Genome-scale CRISPR-Cas9 knockout screening in human cells. Science, 343, 84-87.
9. Wang, T. et al. (2014) Genetic screens in human cells using the CRISPR-Cas9 system. Science, 343, 80-84.