|
Status |
Public on Aug 13, 2013 |
Title |
Hi-C Tcell Rad21KO R1 |
Sample type |
SRA |
|
|
Source name |
CD4+ CD8+ Double Positive Thymocytes
|
Organism |
Mus musculus |
Characteristics |
cell type: CD4+ CD8+ Double Positive Thymocytes genotype: Rad21 KO genetic background: C57BL\6 and 129 mixed
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Belton JM, McCord RP, Gibcus JH, Naumova N, Zhan Y, Dekker J. Hi-C: A comprehensive technique to capture the conformation of genomes. Methods. 2012 Nov; 58(3):268-76.
|
|
|
Library strategy |
OTHER |
Library source |
genomic |
Library selection |
other |
Instrument model |
Illumina Genome Analyzer II |
|
|
Data processing |
DEKKER ICE METHOD - all relevant HiC data (binned at 4 resolutions) raw + iced data UCSC GENOME BROWSER BED FILE - coordinates of all chip-seq peaks Tab delmited file of all gene expression values (count equivalents) across all 4 samples. Genome_build: mm9 Supplementary_files_format_and_content: peak bed (ChIP-seq), counts (RNA-Seq), and HiC data
|
|
|
Submission date |
Jul 10, 2013 |
Last update date |
May 15, 2019 |
Contact name |
Andre J Faure |
E-mail(s) |
andre.faure@crg.eu
|
Organization name |
Centre for Genomic Regulation (CRG)
|
Department |
EMBL-CRG Systems Biology Unit
|
Street address |
Dr. Aiguader 88
|
City |
Barcelona |
ZIP/Postal code |
08003 |
Country |
Spain |
|
|
Platform ID |
GPL9250 |
Series (1) |
GSE48763 |
Cohesin-based chromatin interactions enable regulated gene expression within pre-existing architectural compartments. |
|
Relations |
Reanalyzed by |
GSE87112 |
SRA |
SRX320073 |
BioSample |
SAMN02230618 |