|
| Status |
Public on Jun 09, 2020 |
| Title |
HEK 293T cells, control-HA (ChIP-seq) |
| Sample type |
SRA |
| |
|
| Source name |
HEK 293T cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HEK 293T cells
genotype: empty vector control
chip antibody: HA (Roche, 3F10)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
The chromatin fraction was prepared according to the fanChIP method described in our previous report [Nucleic Acids Research 42:7 4241-4256 (2014)], and DNA/protein complexes were isolated by anti-HA antibody (3F10, Roche).
The fanChIP libraries were constructed using a TruSeq ChIP Sample Prep Kit [iIllumina] following the manufacturer's instructions. The quality and quantity of these libraries were checked using Agilent TapeStation D1000 and KAPA Library Quantification Kits [KAPA BioSystems] / Real-time PCR Systems Step One Plus [Applied Biosystems]. The libraries were sequenced on the Illumina HiSeq 2500 System with 50-bp single-end reads according to the manufacturer’s protocol at the core facility of Hiroshima University.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
control-HA ChIP
|
| Data processing |
Basecalls performed using bcl2fastq 1.8.4
Sequenced reads were trimmed for adaptor sequence using Cutadapt 1.3, and mapped to human genome assembly hg19 using BWA 0.7.5.
Genome_build: hg19
Supplementary_files_format_and_content: tdf files were generated using IGVtools.
|
| |
|
| Submission date |
Mar 27, 2020 |
| Last update date |
Jun 09, 2020 |
| Contact name |
Shuhei Asada |
| Organization name |
Institute of Medical Science, The University of Tokyo
|
| Department |
Cellular Therapy
|
| Lab |
Kitamura Lab
|
| Street address |
4-6-1 Shirokanedai, Minato-ku
|
| City |
Tokyo |
| ZIP/Postal code |
1088639 |
| Country |
Japan |
| |
|
| Platform ID |
GPL16791 |
| Series (2) |
|
| Relations |
| BioSample |
SAMN14470202 |
| SRA |
SRX8013009 |
