The targeted loci were amplified from extracted genomic DNA by PCR using Herculase II polymerase (Agilent). PCR amplicons were sequenced using primers ~200 bp from the expected cut site. To measure editing frequencies, the sequencing traces were analyzed using tracking of indels by decomposition (TIDE) (38 (link)). Primers, listed in SI Appendix, Table S5 , were synthesized by Integrated DNA Technologies.
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TIDE Analysis of CRISPR Editing
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Genomic
Indels
Primers
Corresponding Organization :
Other organizations : Massachusetts Institute of Technology
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Variable analysis
independent variables
- PCR using Herculase II polymerase (Agilent)
- Primers used to amplify the targeted loci and for sequencing
- Editing frequencies measured by analyzing the sequencing traces using tracking of indels by decomposition (TIDE)
- Extracted genomic DNA used as the template for PCR amplification
- No positive or negative controls were explicitly mentioned in the provided information.
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