|
Status |
Public on Sep 17, 2023 |
Title |
D988F03_D1355F01_Hi-C p50_Adult-Heads |
Sample type |
SRA |
|
|
Source name |
head and thorax
|
Organism |
Bombyx mori |
Characteristics |
tissue: head and thorax strain: p50
|
Growth protocol |
Bombyx mori moths were grown to adult stage at 25°C fed with Morus alba leaves and heads and thorax were cut using a scalpel
|
Extracted molecule |
genomic DNA |
Extraction protocol |
The head of one moth was dipped and ground with a piston pellet in 3% formaldehyde and incubated for 30 min. After quenching, the head was frozen at -80°C and processed with Arima-HiC+ kit from Arima genomics. Sequencing libraries were prepared using the KAPA HyperPrep Library Preparation Kit complemented with Illumina TruSeq DNA UD Indexes. Libraries were amplified using 8-14 cycles on the thermocycler. Post amplification libraries were size selected at 250-600bp in length using SPRIselect beads from Beckman Coulter. Libraries were validated using the Agilent High Sensitivity screenTapes.
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|
|
Library strategy |
Hi-C |
Library source |
genomic |
Library selection |
other |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Description |
Hi-C
|
Data processing |
Library were sequenced on Novaseq. Adapter sequences were trimmedfrom reads using trimgalore. Hi-C reads were processed and filtered using the HiCPro suite. Matrices files have been generated using the cooler suite and format. Assembly: Bmori_v3 or Bmori_4 Supplementary files format and content: multi-resolution cooler
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|
|
Submission date |
Mar 28, 2023 |
Last update date |
Sep 17, 2023 |
Contact name |
Héloïse Muller |
E-mail(s) |
heloise.muller@curie.fr
|
Organization name |
Institut Curie
|
Lab |
UMR3664
|
Street address |
26 rue d'Ulm
|
City |
Paris |
ZIP/Postal code |
75005 |
Country |
France |
|
|
Platform ID |
GPL29210 |
Series (2) |
GSE228399 |
Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori [Hi-C head] |
GSE228401 |
Unique territorial and sub-chromosomal organization revealed in the holocentric moth Bombyx mori |
|
Relations |
BioSample |
SAMN33954982 |
SRA |
SRX19798785 |