|
| Status |
Public on Apr 13, 2016 |
| Title |
KO19_pool-2 |
| Sample type |
SRA |
| |
|
| Source name |
KO19_pool
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: HCT116 cells, MLL2 KO, clone 19 (Guo et al, 2012)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
gDNA was extracted using Qiagen's QIAamp DNA kit. RNAse treatment was performed.
DNA libraries were prepared according to manufacturer's (Thermo Fischer Scientific) instructions.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Ion Torrent PGM |
| |
|
| Description |
NGS-6769
processed data file: hg19_Calls.txt
|
| Data processing |
Base Calling and alignment performed using the Torrent Suite 4.2.1
Mpileups generated by samtools 0.1.16
Variant Calling with Varscan 2.3.6 default parameters
Calls combined and manually reviewed and filtered
Genome_build: hg19 and mm10 as appropriate
Supplementary_files_format_and_content: [hg19_Calls.txt, mm10_Calls.txt] Tab delimited text file, binary presence/absence calls
|
| |
|
| Submission date |
Sep 17, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Theo Kantidakis |
| E-mail(s) |
theo.kantidakis@crick.ac.uk
|
| Phone |
01707625838
|
| Organization name |
Francis Crick Institute
|
| Department |
Clare Hall Laboratories
|
| Lab |
Svejstrup Lab
|
| Street address |
Blanche Lane
|
| City |
South Mimms |
| ZIP/Postal code |
EN6 3LD |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL17301 |
| Series (2) |
| GSE73128 |
Mutations in histone and other genes in MLL2-impaired human and mouse cells |
| GSE73130 |
Mutation of cancer driver MLL2 results in transcription stress and genome instability |
|
| Relations |
| BioSample |
SAMN04093792 |
| SRA |
SRX1254087 |
