Illumina HiSeq 3000 paired end sequencing; Illumina HiSeq 3000 paired end sequencing; Pig in situ HiC chromosome conformation capture experiments in the liver tissue by the FAANG pilot project FR-AgENCODE
Paired-end in situ HiC for chromosome conformation capture in the liver tissue on an Illumina HiSeq 3000
in situ Hi-C from Rao, 2014 protocol adapted for frozen tissue
assay type
Hi-C
sample storage
frozen, -70 freezer
sample storage processing
cryopreservation in liquid nitrogen (dead tissue)
sampling to preparation interval
9
experimental protocol
ftp://ftp.faang.ebi.ac.uk/ftp/protocols/assays/INRA_SOP_Hi-C_HA_v1_20160610.pdf
extraction protocol
ftp://ftp.faang.ebi.ac.uk/ftp/protocols/assays/INRA_SOP_Hi-C_HA_v1_20160610.pdf
hi-c protocol
ftp://ftp.faang.ebi.ac.uk/ftp/protocols/assays/INRA_SOP_Hi-C_HA_v1_20160610.pdf
library preparation location
GenPhySE, INRA Castanet-Tolosan, France
library preparation location longitude
1.499654
library preparation location latitude
43.527571
library preparation date
2016-02-04
sequencing location
Plateforme Genomique de Toulouse, INRA Castanet-Tolosan, France
sequencing location longitude
1.499654
sequencing location latitude
43.527571
sequencing date
2016-07-04
experiment target
chromatin
restriction enzyme
HindIII
restriction site
AAGCTT