De Novo Assembly

Generate finished genome assemblies with the PacBio RS II

Faster and more cost-effective DNA sequencing technologies are accelerating investigations of a broad range of genomes – from model organisms to pathogens that may have a direct impact on human health. However, only a limited number of species have been completely sequenced due to the inherent limitations of second-generation sequencing technologies, including GC-bias and the inability to resolve large structural variations. A complete genome is needed to fully understand the biological relevance of an organism.

The complexity of genome assembly is driven by a variety of factors, including the length and number of total fragments and the presence of repeat regions. The PacBio RS II single-molecule, real-time sequencing system provides extra-long read lengths that simplify and improve genome assembly. By reducing the number of contigs and producing superior consensus accuracy, researchers can finish genomes at a lower cost and with higher quality data.


  • Highest N50
  • Fewest contigs
  • Detect structural variation
  • 99.999% accuracy
  • Genome finishing at 1/10th the cost

  • Virtual Poster: Upgrading Reference Genomes with PacBio Long Read Sequencing, Adam English (Baylor)
  • Webinar: 15 Years of Human Genomes, Mike Hunkapiller (PacBio)
  • Webinar: Automated, Non-Hybrid De Novo Genome Assemblies and Epigenomes of Bacterial Pathogens, Jonas Korlach (Pacific Biosciences)
  • Webinar: A Near Perfect de novo Assembly of a Eukaryotic Genome Using Sequence Reads of Greater Than 10 Kilobases Generated by the PacBio RS II, Richard McCombie (CSHL)
  • Webinar: Error Correction and De Novo Assembly of Complex Genomes, Mike Schatz (CSHL).
  • Webinar: High-Quality Asian Genome Supports Population-Specific Variant Analysis, Jeong-Sun Seo (Macrogen)
  • Webinar: The Human Genome: From One to One Million, Craig Venter (Human Longevity)
  • Webinar: Hybrid Error Correction and De Novo Assembly of Single-Molecule Sequencing Reads, Adam Phillippy & Sergey Koren (NBACC)
  • Webinar: Long-Read Sequencing Offers High-Res View of Breast Cancer Genetics, Richard McCombie (CSHL)
  • Webinar: The Need for a Complete, Representative Human Genome Reference, Deanna Church (Personalis)
  • Webinar: No Assembly Required - Extremely Long Reads for Full-length Transcript Isoform Sequencing, Jonas Korlach (Pacific Biosciences)
  • Webinar: Perfection in Human Genome Assembly, Gene Myers (Max Planck Institute)
  • Webinar: Revealing the Genome through SMRT Biology, Kerstin Stangier (GATC Biotech)
  • Webinar: String Graph Assembly For Diploid Genomes With Long Reads, Jason Chin (Pacific Biosciences)
  • Webinar: Using PacBio Reads and PBJelly Software to Improve Genomes: A Cost-Effective Approach to Finishing, Kim Worley (Baylor College of Medicine)
  • Brochure: PacBio RS II Sequencing System
  • Case Study: Cod Genome Assembly – Long Reads Offer Unique Insight
  • Case Study: For Antarctic Genome, Scientists Find Unique Capability in SMRT DNA Sequencing
  • Case Study: Scientists Create Gold-Standard Plant and Animal Genomes with SMRT Sequencing
  • Overview - Application: Bringing the W Back to Whole Genome Sequencing
  • Perspective: Understanding Accuracy in SMRT Sequencing
  • Presentation: De Novo Assembly of Complex Crop Genomes, Mike Schatz, Cold Spring Harbor Laboratory
  • Presentation: The Best of Both Worlds: Combining PacBio with Short Read Technology for Improved de novo Genome Assembly
  • Primer: The Value of Finished Bacterial Genomes
  • Service Provider Profile: In Seoul DNA Link Offers Excellence in SMRT Sequencing
  • Poster: Automated, Non-Hybrid De Novo Genome Assemblies and Epigenomes of Bacterial Pathogens, Tyson Clark (Pacific Biosciences)
  • Poster: Genome Sequencing of Endosymbiotic Bacteria Streptomyces sp. From Antarctic Lichen using SMRT Technology, Sujin Kim (DNA Link)
  • Poster: Genome Sequencing of Microbial Genomes using Single Molecule Real-Time Sequencing Technology, Sujin Kim (DNA Link)
  • Poster: Greater than 10 kb Read Lengths Routine when Sequencing with Pacific Biosciences' XL Release, Cheryl Heiner (Pacific Biosciences)
  • Poster: Mind the Gap - Upgrading Reference Genomes with Long Read Sequencing, Adam English (Baylor)
  • Poster: Sequencing and De Novo Assembly of the 17q21.31 Disease-associated Region using Long Reads Generated by SMRT Sequencing Technology, Swati Ranade (Pacific Biosciences)
  • Poster: Taking Advantage of Long Read Lengths with Improved Library Preparation Methods, Joan Wilson (Pacific Biosciences)
  • Poster: Towards Finishing Genome Assembly Using SMRT Sequencing, Jenny Gu (Pacific Biosciences)