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Data Upload: Sample Data
CRISPRAnalyzeR comes with read count sample data that can be accessed from the help on the data upload section.
Moreover, we offer additional sample data that you can download from our website:
- Drug Resistance Screen Data from CRISPR Library Designer
- Essential Genes Screen Data using the TKOv1 library
This data was published before in F. Heigwer*, T. Zhan*, M. Breinig, J. Winter, D. Brügemann, S. Leible, M. Boutros, CRISPR library designer (CLD): software for multispecies design of single guide RNA libraries, Genome Biol., 2016, DOI:10.1186/s13059-016-0915-2
You can download pre-made read count files for data analysis from here.
These include four read count text files as well as the sgRNA library file in FASTA format.
You can directly use these files with the default parameters within CRISPRAnalyzeR.
You can download FASTQ Sequencing files from here.
These include four NGS raw data files in compressed fastq format as well as the sgRNA library file in FASTA format.
You can directly use these files with the default parameters within CRISPRAnalyzeR.
This data was published in Steinhart,Z. et al. (2016) Genome-wide CRISPR screens reveal a Wnt-FZD5 signaling circuit as a druggable vulnerability of RNF43-mutant pancreatic tumors. Nat. Med.
You can download raw read count data including a TKO sgNRA library FASTA file from here
In order to use these files, you need to adjust the gene identifier from Ensembl Gene ID to HGNC Symbol in the Analysis Settings.
CRISPRAnalyzeR offers pre-made sgRNA library files in FASTA format for use. You can use them along with your read count (please see the format) or raw NGS sequencing files (.fastq.fz).
| Library Name | Lab | Pubmed ID | Addgene | Download |
|---|---|---|---|---|
| CLD Benchmarking | Boutros | 27013184 | NA | FASTA |
| Gecko V2 | Zhang | 25075903 | here | A+B FASTA A FASTA B FASTA |
| Gecko V2 MOUSE | Zhang | 25075903 | here | A FASTA B FASTA |
| Torronto KnockOut Library (TKOv1) | Moffat | 26627737 | here | 90K FASTA & 85K FASTA |
| Brunello | Doench | 26780180 | here | FASTA |
| CRISPRa / CRISPRi | Weissmann | 25307932 | here | not available yet |
| Human Lentiviral sgRNA library high cleavage activity | Sabatini | 26472758 | here | 185K FASTA |
| Human Lentiviral sgRNA sub libraries | Sabatini | 24336569 | here | not available yet |