|
| Status |
Public on Jul 02, 2021 |
| Title |
T8_Tr_rep1_CRISPR_RBP |
| Sample type |
SRA |
| |
|
| Source name |
MYC-ER HMEC
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MYC-ER HMEC
treatment: 4-Hydroxytamoxifen
timepoint: Day 8
cell culture: Medium 171/ MEGS supplement
|
| Treatment protocol |
4-Hydroxytamoxifen at 15nM
|
| Growth protocol |
Standard
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
gDNA was extracted and sonicated to ~1000bp. sgRNA containing fragments were recovered with biotinylated RNA probes targeting the flanking region on the lenticrispr v2 backbone and pulled down with streptavidin beads. gDNA fragments were PCRed first with primers flanking the sgRNA and second with Illumina sequencing adapters.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
all.countsummary.txt
MYC_HMEC_MLE_day8.gene_summary.txt
|
| Data processing |
Library strategy: DNA-seq
CRISPR screening data was aligned and processed using MaGeCK.
Genome_build: hg19
Supplementary_files_format_and_content: MaGeCK processed gene summary
|
| |
|
| Submission date |
Sep 11, 2019 |
| Last update date |
Jul 02, 2021 |
| Contact name |
Gene Yeo |
| E-mail(s) |
geneyeo@ucsd.edu
|
| Organization name |
UCSD
|
| Street address |
2880 Torrey Pines Scenic Dr. Room 3805/Yeo Lab
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92037 |
| Country |
USA |
| |
|
| Platform ID |
GPL20301 |
| Series (1) |
| GSE137258 |
Inhibition of YTHDF2 triggers proteotoxic cell death in MYC-driven breast cancer |
|
| Relations |
| BioSample |
SAMN12727103 |
| SRA |
SRX6830193 |
