HiCseq of Drosophila rufa: female whole body - SRA

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SRX24778822: HiCseq of Drosophila rufa: female whole body
1 ILLUMINA (Illumina NovaSeq 6000) run: 29.2M spots, 8.8G bases, 2.8Gb downloads

Design: HiC-sequencing libraries were generated using the Arima-HiC+ kit followed by the Swift Accel-NGS2S Plus library preparation kit with some modifications. 50-100 adult female flies were collected, flash frozen, and pulverised into a fine powder using a pellet pestle. Crosslinking, lysis, chromatin fragmentation, repair and biotinylation, ligation, shearing, and pull-down were all performed according to the Arima-HiC+ protocol. Libraries were generated using the Swift-Accel-NGS 2S Plus library preparation kit and PCR amplified for 8-10 cycles. The final libraries were then quality-checked and quantified for multiplexing using the Bioanalyzer High-Sensitivity DNA kit (Agilent) and Qubit dsDNA HS Assay kit (Thermo Scientific). The multiplexed libraries were sequenced as 150bp paired-end reads on the Illumina Novaseq 6000 SP.

Submitted by: University of Cambridge

Study: Drosophila species HiC and RNA sequencing

PRJNA1119277 • SRP511279 • All experiments • All runs

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We generated HiC data from whole female flies for 22 Drosophila species, for which ONT-sequencing-based genome assemblies are available, to scaffold these assemblies in order to achieve chromosome-level genome quality, together with 8 species with publicly available HiC data. We further produced RNA sequencing data from ovaries for these 30 species to annotate the scaffolded genome assemblies.

Sample:

SAMN41649383 • SRS21497306 • All experiments • All runs

Organism: Drosophila rufa

Library:

Name: SLX-20418.swA010

Instrument: Illumina NovaSeq 6000

Strategy: Hi-C

Source: GENOMIC

Selection: PCR

Layout: PAIRED

Runs: 1 run, 29.2M spots, 8.8G bases, 2.8Gb

Run	# of Spots	# of Bases	Size	Published
SRR29261122	29,231,520	8.8G	2.8Gb	2024-06-24

ID:: 33104160

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