Chromosome conformation capture of Ameiurus melas - SRA

SRX14027785: Chromosome conformation capture of Ameiurus melas
1 ILLUMINA (Illumina NovaSeq 6000) run: 34.4M spots, 10.3G bases, 3Gb downloads

Design: The Hi-C experiment was performed using Dovetail Hi-C Kit according to the manufacturer's protocol. Briefly, chromatin was fixed in place with formaldehyde in the nucleus and then extracted. Fixed chromatin was digested with DpnII, the 5' overhangs filled in with biotinylated nucleotides, and then free blunt ends were ligated. After ligation, crosslinks were reversed, and the DNA purified from proteins. Purified DNA was treated to remove biotin that was not internal to ligated fragments. The DNA was then sheared to ~550 bp mean fragment size (Covaris) and a sequencing library was generated using Illumina adapters. Biotin-containing fragments were isolated using M280 Streptavidin Dynabeads (Invitrogen) before PCR enrichment of the library. The library was sequenced on an NovaSeq platform to generate 34 million 2 x 150 bp read pairs.

Submitted by: INRAE (Fish Physiology and Genomics laboratory)

Study: Ameiurus melas isolate:M_S1 Genome sequencing and assembly

PRJNA603265 • SRP300856 • All experiments • All runs

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Genome sequence of the black bullhead catfish (Ameiurus melas)

Sample:

SAMN13926790 • SRS7989207 • All experiments • All runs

Organism: Ameiurus melas

Library:

Name: Ameiurus_melas_HiC3

Instrument: Illumina NovaSeq 6000

Strategy: Hi-C