PacBio Sequel II Sequencing System

Description

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

Instrument Data Source Profile

Instrument Platform:       PacBio Sequel II System, a data collection device

Source Taxonomy:           Measurement DeviceInstrument > Sequencer > Long Read Sequencer

                                                > PacBio Sequel System (EFO:0008630)

Data Type:                         Biological Data > Genetic data Genomic data

Data Format:                     Data item > DatasetFASTQ format and BAM sequence trace format

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

Laboratory Technique:     Measurement Technique using a Procedure > Standard Operating Procedure

                                                > PacBio Sequel II Sequencing Protocol > nucleic acid sequencing protocol

Experimental Design:       Assay > assay by long read sequencercirculome-seq

Research Topic Areas:      Scientific DataGenomics, Sequencing > whole genome sequencingepigenetics, transcriptomics

Research Categories:       Integrative OmicsMicrobiome ScienceBiology, Human Health

 

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.

    Projects (1)

    PerCon SFA Project Publication Linked Data Catalog (uploads pending) The Persistence Control of Engineered Functions in Complex Soil Microbiomes Project (PerCon SFA), at Pacific Northwest National Laboratory (PNNL) is a Genomic Sciences Program, Biosystems Design, Research Science Focus Area project...

    1. Datasets

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    People (1)

    Lindsey Anderson’s research has been dedicated to the identification and characterization of novel, targeted and non-targeted, functional metabolic interactions using a high-throughput systems biology and computational biology approach. Her expertise in functional metabolism and multidisciplinary...