Michael Schatz from Cold Spring Harbor Laboratory talks about using SMRT Sequencing to generate the world's best crop genome assembly, discovering thousands of gene elements that had never been seen before. He also reports on how long reads made it possible to interrogate a highly complex breast cancer cell line that was too challenging to sequence with previous platforms.
Commentary from PacBio users on their applications of SMRT Sequencing, including Ulf Gyllensten (Uppsala University), Tim Smith (USDA-ARS) and Bobby Sebra (Icahn School of Medicine)
PacBio customers discuss their applications of PacBio SMRT Sequencing and long reads, including Lemuel Racacho (Children's Hospital of Eastern Ontario Research Institute), Matthew Blow (JGI), Yuta Suzuki (U. of Tokyo), Daniel Geraghty (Fred Hutchinson Cancer Center), and Mike Schatz (CSHL)
Alex Dainis from Stanford University says the Sequel System from PacBio will offer more power to multiplex samples more efficiently.
Bobby Sebra from the Icahn School of Medicine at Mount Sinai talks about how he uses PacBio sequencing for disease biology, pathogen surveillance, metagenomic sequencing, and more. With reads 70 kb or even longer, SMRT Sequencing lets him characterize tandem repeats and other structurally relevant elements that are inaccessible with short-read sequencing.
Mario Caccamo, head of bioinformatics at The Genome Analysis Centre (TGAC) in the UK, integrates many different sequencing technologies to get the best of each for optimal genome assemblies, analysis, and annotation. He uses PacBio's SMRT Sequencing due to its unique long reads for scaffolding and finishing genomes.
Mario Caccamo, head of bioinformatics at The Genome Analysis Centre (TGAC) in the UK, integrates many different sequencing technologies to get the best of each for optimal genome assemblies, analysis, and annotation. He uses PacBio's SMRT Sequencing due to its unique long reads for scaffolding and finishing genomes.
Dr. Nezih Cereb, CEO & co-founder of HistoGenetics shares his reasons for adopting the PacBio DNA Sequencing platform for their operations and elaborates how the system's unique ability to sequence full-length HLA amplicons irrespective of insert size and to provide fully phased HLA alleles will be used for HLA typing.
Chad Nusbaum from the Broad Institute talks about the sequencing projects that will now be possible with the new Sequel System from PacBio, including efforts to sequence human genomes that currently are limited by cost.
Yunfei Guo, a grad student at the University of Southern California, discusses the benefits of SMRT Sequencing: very long reads that make it possible to resolve long repetitive regions and discover structural variants, and a random error mode that allows for extremely high accuracy.
Paul Hagerman, MD/PhD, a professor in the biochemistry and molecular medicine department at UC Davis discusses the use of PacBio SMRT sequencing technology for the fragile X gene. Hagerman says the PacBio RS is able to sequence through more than a kilobase of the CGG trinucleotide repeat element underlying Fragile X Syndrome -- something no other sequencing platform has achieved. He also plans to use the data to study methylation of this gene, which tends to occur in cases where there are more than 200 copies of the CGG element.
Bart Weimer, a professor at the University of California, Davis, who is leading the 100K Foodborne Pathogen Genome Project, talks about using PacBio sequencing to produce long reads for microbial genomes as well as to study how bacteria use epigenetics to regulate gene expression.
Ulf Gyllensten shares how whole genome sequencing with PacBio is revealing variation and regions of the genome never previously known.
Lemuel Racacho at the Children's Hospital of Eastern Ontario says that his team chose SMRT Sequencing to detect longer isoforms of noncoding RNAs and to survey numerous transcripts. Continuous long reads offer a chance to see a lot of RNA missed by other technologies, he adds.
Tim Smith from the USDA's Agricultural Research Service talks about using long-read sequencing to redo assemblies for cattle, swine, sheep, and goat. Long-read assemblies correct misassemblies and other problems from older genome projects. Smith says SMRT Sequencing has also made possible isoform sequencing as well as microbiome characterization.