|
| Status |
Public on Mar 01, 2018 |
| Title |
Library 1 Sorted Cells [E. coli] |
| Sample type |
SRA |
| |
|
| Source name |
Replicate 1
|
| Organism |
Escherichia coli K-12 |
| Characteristics |
strain: MG1655
|
| Treatment protocol |
Treatment was performed by sorting cells based on GFP fluorescence.
|
| Growth protocol |
Cells were grown in LB medium prior to, and after, cell sorting.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
After sorting, cells were lysed with the Zymo (CN# D4036) and plasmid DNA containing PAMs was isolated
Library was constructed by amplifying the diverse PAM library with conserved oligos, followed by a seconnd indexing step adding the necessary Illumina adapters.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina MiSeq |
| |
|
| Description |
Campy Data.xlsx
|
| Data processing |
Library strategy: DNA amplicon sequencing
Reads were processed by requiring an exact match 10nt upstream, and 30nt downstream, of the PAM region. If those were correct, the PAM was isolated and placed into a list.
Supplementary_files_format_and_content: Processed data forms are counts of each PAM isolated from the sequencing reads
|
| |
|
| Submission date |
Dec 27, 2017 |
| Last update date |
Mar 01, 2018 |
| Contact name |
Thorsten Bischler |
| E-mail(s) |
thorsten.bischler@uni-wuerzburg.de
|
| Organization name |
University of Wuerzburg
|
| Department |
Core Unit SysMed
|
| Street address |
Josef-Schneider-Straße 2 / D15
|
| City |
Würzburg |
| ZIP/Postal code |
97080 |
| Country |
Germany |
| |
|
| Platform ID |
GPL19168 |
| Series (1) |
| GSE106849 |
CRISPR RNA-dependent binding and cleavage of endogenous RNAs by the Campylobacter jejuni Cas9 |
|
| Relations |
| BioSample |
SAMN08245532 |
| SRA |
SRX3581656 |
