|
Status |
Public on Apr 13, 2016 |
Title |
KO19_pool-1 |
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-6768 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 |
SAMN04093791 |
SRA |
SRX1254086 |