Data Upload: FASTQ Extraction Settings used in Step3
If you use FASTQ sequencing files directly, CRISPRAnalyzeR requires the use of a so-called 'regular expression' to extract the sgRNA target sequence from your sequencing data.
However, the CRISPRAnalzyeR comes with some pre-defined settings for commonly used screening libraries and their vector systems. In case you don't know which is the best setting for your screen, please do not hesitate and create an issue or write me an email.
| Plasmid Name | Lab | Addgene ID | Regular Expression |
|---|---|---|---|
| Lenticrisp V2 | Feng Zhang | 52961 |
Default ACC(.{20,21})G
|
| Lentiguide (Puro) | Feng Zhang | 52963 |
Default ACC(.{20,21})G
|
| Human Lentivirus Library V1 | Haoquan Wu | 69763 | GTTT(.{20})G |
| pLCKO (Moffat TKO) | Moffat | 73311 | ACCG(.{20,21})G |
| pU6-sgRNA EF1Alpha-puro-T2A-BFP (CRISPRa/i) | Weissman | 60955, 62217, 60956 | GTTG(.{20})G |