Data Source - Sequencing PacBio Sequel II Sequencing System

The Sequel II System Sequencer is a high-throughput DNA sequencer machine developed and manufactured by PacBio, and is designed for high throughput, production-scale sequencing laboratories. Originally released in 2015, the Sequel system provides Single Molecule, Real-Time (SMRT) sequencing core technology powering long-read sequencing platform services for a variety of applications across life science community investigations. For projects seeking rapid and cost-effective de novo genome assembly and structural variation analysis, the PacBio HiFi technology is developed for sequencing up to 8 SMRT Cells in a single run, starting at just 5 ng. HiFi reads are produced using circular consensus sequencing (CCS) mode on PacBio long-read systems, and provide base-level resolution with 99.9% single-molecule read accuracy (Wenger, A. M., et al. 2019). PacBio open-source SMRT Analysis software suite is designed for use with SMRT sequencing data and is provided through PacBio. Primary applications include whole genome sequencing for de novo assembly, metagenome sequencing, RNA targeted analysis, epigenetic characterization, variant detection and many other services for comprehensive views of human, plant, animal, and microbial genomes, transcriptomes, and epigenomes applicable to both biomedical and environmental research topic investigations.

PacBio Sequel II pre-processed raw data is packaged in a .fastq format and can be accessed at project dataset download DOI containing additional processed data products, metadata, and software analysis outputs related to a long read sequence analysis.

Data Source Contributions

• LN Anderson > Data Curation

Instrument Data Source Profile

Instrument Platform:       PacBio Sequel II System (SMRT Cell 8M)

Source Taxonomy:           Instrument > Long Read Sequencer > PacBio Sequel System

Data Type:                         Genomic data > HiFi long-read sequence data

Data Format:                     FASTQ format and BAM sequence trace format

Method Type:                    Molecular Biology Method > nucleic acid identification and quantitation method

Laboratory Technique:     PacBio Sequel II Sequencing Protocol > nucleic acid sequencing protocol

Experimental Design:       Assay > assay by long read sequencer, circulome-seq

Research Topic Areas:      Whole genome sequencing, epigenetics, transcriptomics

Acknowledgements

This work was supported in part by the Earth and Biological Sciences Directorate (EBSD) at Pacific Northwest National Laboratory (PNNL), a multiprogram national laboratory managed by the Battelle Memorial Institute, operating under the U.S. Department of Energy (DOE) contract DE-AC05-76RL01830. User capabilities described here reflect collaborations with the Environmental Molecular Sciences Laboratory (EMSL), a DOE Office of Science (SC-3) user facility operating under the Contract No. DE-AC05-76RL01830.