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Run
KAR21040030
Experiment Title
Illumina HiSeq 2500 paired Sequencing of KAS20000279 (PRJDB19217)

Common Fields
Common Fields - BioProject, Data Type, Submission date, Access, Release date, Runs
Experiment
Accession KAE21040030
library name HCC70_rep1_GENOMIC
platform ILLUMINA
strategy ChIA-PET
source GENOMIC
selection other
layout paired
BioSample
Accession KAS20000279
Sample name HCC70_rep1
Organism Homo sapiens
BioProject
Accession KAP200004
Project title Discovery of 3D-nucleome biomarker in liver/breast cancer patients

Run Metadata
Primary
(1 cases)
Run Metadata - RUN ID, EXPERIMENT ID, BIOSAMPLE ID, LIBRARY IDENTIFIER, TYPE OF PRIMARY DATA FILE, NAME OF PRIMARY DATA FILE
file type
location
file name
bytes
total sequences (bp)
sequence lengh (bp) Release date Access type
fastq KBDS-KRA 2,482,862,120 2,482,862,120 2021-12-03 PUBLIC

library_construction_protocol
Total 50,000 BT549 cells were washed two times with 50ul cold PBS, and resuspended with 50ul cold lysis buffer10 mM Tris-Cl, pH7.5, 10 mM NaCl, 3 mM MgCl2, 0.1% NP-40. After centrifugation at 2,000 rpm for 10 min at 4?? nuclei were incubated in fresh 25ul TD Buffer 10mM Tris-HCl pH8.0, 5mM MgCl2, 10% dimethylformamide with 2.5ul Tn5 Transposase and 23ul DW at 37degree Celsius for 30min. QIAquick PCR purification kitQiagen; cat. no. 28106 was used to purify DNA fragments. We used HiFi HotStart ReadyMix KAPA; KK2601 for library amplification following provided manual except number of PCR cycle: we performed 15 cycle for PCR amplification. The amplified library was purified with a QIAquick PCR purification kit Qiagen; cat. no. 28106 and sequenced using a Hiseq2500 system50bp with the paired method.

Analysis
(0 cases)
Run Metadata - RUN ID, EXPERIMENT ID, BIOSAMPLE ID, LIBRARY IDENTIFIER, TYPE OF PRIMARY DATA FILE, NAME OF PRIMARY DATA FILE
analysis type
file type
location
File name
bytes
Release date Access type
No Run data.

Reference
(0 cases)
Run Metadata - RUN ID, EXPERIMENT ID, BIOSAMPLE ID, LIBRARY IDENTIFIER, TYPE OF PRIMARY DATA FILE, NAME OF PRIMARY DATA FILE
reference type RefSeq accession ID File name
No Run data.