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Application Brief: Long-read RNA sequencing – Best Practices

2019

Summary +

With Single Molecule, Real-Time (SMRT) Sequencing and the Sequel Systems, you can easily and affordably sequence complete transcript isoforms in genes of interest or across the entire transcriptome. The Iso-Seq method allows users to generate full-length cDNA sequences up to 10 kb in length — with no assembly required — to confidently characterize full-length transcript isoforms.

Application Brochure: Explore metagenomes in high resolution

2019

Summary +

The ability to identify and understand the functions of the complex microbial populations living in, on, and around us requires comprehensive characterization of each community member. Highly accurate long reads– HiFi reads–with single-molecule resolution make Single Molecule, Real-Time (SMRT) Sequencing ideal for full-length 16S rRNA sequencing, long-read metagenomic profiling, and shotgun metagenomic assembly.

Case Study: Mining complex metagenomes for protein discovery with long-read sequencing

2019

Summary +

The bacteria living on and within us can impact health, disease, and even our behavior, but there is still much to learn about the breadth of their effects. The torrent of new discoveries unleashed by high-throughput sequencing has captured the imagination of scientists and the public alike. Scientists at Second Genome are hoping to apply these insights to improve human health, leveraging their bioinformatics expertise to mine bacterial communities for potential therapeutics. Recently they teamed up with scientists at PacBio to explore how long-read sequencing might supplement their short-read-based pipeline for gene discovery, using an environmental sample as a test case. They were especially interested in identifying unique, complete, and error-free gene clusters in metagenomic assemblies.

Infographic: A brief history of microbiology

2019

Summary +

Our understanding of microbiology has evolved enormously over the last 150 years. Few institutions have witnessed our collective progress more closely than the National Collection of Type Cultures (NCTC). In fact, the collection itself is a record of the many milestones microbiologists have crossed, building on the discoveries of those who came before. To date, 60% of NCTC’s historic collection now has a closed, finished reference genome, thanks to PacBio Single Molecule, Real- Time (SMRT) Sequencing. We are excited to be their partner in crossing this latest milestone on their quest to improve human and animal health by understanding the microscopic world.

Case Study: Sequencing an historic bacterial collection for the future

2019

Summary +

The UK’s National Collection of Type Cultures (NCTC) is a unique collection of more than 5,000 expertly preserved and authenticated bacterial cultures, many of historical significance. Founded in 1920, NCTC is the longest established collection of its type anywhere in the world, with a history of its own that has reflected — and contributed to — the evolution of microbiology for more than 100 years.

Technical Note: Preparing DNA for PacBio whole genome sequencing for de novo assembly – Quality control and shearing

2019

Summary +

Single Molecule, Real-Time (SMRT) Sequencing uses the natural process of DNA replication to sequence long fragments of native DNA. As such, starting with high-quality, high molecular weight (HMW) genomic DNA (gDNA) will result in longer libraries and better performance across difficult to sequence regions of the genome. This technical note is intended to give recommendations, tips and tricks for assessing and preserving the quality and size of your gDNA sample, shearing methods, and size selection procedures for samples intended to be used with whole genome sequencing for de novo assembly.

Technical Note: Preparing libraries for PacBio whole genome sequencing for de novo assembly – Quality control and size selection

2019

Summary +

Single Molecule, Real-Time (SMRT) Sequencing uses the natural process of DNA replication to sequence long fragments of native DNA. As such, starting with high-quality, high molecular weight genomic DNA will result in longer libraries and better performance across difficult to sequence regions of the genome. This technical note is intended to give recommendations, tips and tricks for assessing and preserving the quality and size of your SMRTbell library, and size selection procedures for libraries intended to be used with whole genome sequencing for de novo assembly.

Application Brief: Structural variant detection using whole genome sequencing – Best Practices

2019

Summary +

With the Sequel II System powered by Single Molecule, Real-Time (SMRT) Sequencing technology and SMRT Link v7.0, you can affordably and effectively detect structural variants (SVs), copy number variants, and large indels ranging in size from tens to thousands of base pairs. PacBio long-read whole genome sequencing comprehensively resolves variants in an individual with high precision and recall. For population genetics and pedigree studies, joint calling powers rapid discovery of common variants within a sample cohort.

Application Brief: Variant detection using whole genome sequencing with HiFi reads – Best Practices

2019

Summary +

With highly accurate long reads (HiFi reads) from the Sequel II System, powered by Single Molecule, Real-Time (SMRT) Sequencing technology, you can comprehensively detect variants in a human genome. HiFi reads provide high precision and recall for single nucleotide variants (SNVs), indels, structural variants (SVs), and copy number variants (CNVs), including in difficult-to-map repetitive regions.

Application Brief: Whole genome sequencing for de novo assembly – Best Practices

2019

Summary +

Single Molecule, Real-Time (SMRT) Sequencing on the Sequel II System enables easy and affordable generation of high-quality de novo assemblies of even the most complex genomes. With megabase-size contig N50s, consensus accuracies >99.99%, and tools for phasing haplotypes you can capture undetected SNVs, fully intact genes, and regulatory regions embedded in complex structures that fragmented draft genomes often miss.

Event

Cold Spring Harbor Laboratory Microbiome Meeting

 July 18, 2019-July 21, 2019

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