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Genome Builder™

Accurate sequence assembly is challenging, especially for larger genomes–plants, animals and humans.

Now you don’t have to choose–compromise with draft genomes, containing a high number of sequence gaps and missing data–or spend months or years to complete expensive downstream steps. Genome-Builder enables faster, more complete assembly for large genome de novo sequencing projects.

A New Paradigm for Reference Genome Assembly

Joins scaffolds to close gaps–more complete view for comparative genomics studies
Defines order and orientation for more than 90% of sequence scaffolds–more confidence in accuracy
Completes assembly in 2 weeks–faster projects and publications

How Genome-Builder works–4 steps

Genome-Builder™ software closes gaps, completes assembly

Genome-Builder completes assembly for genomes up to 3Gb in size in about 10% of the time required for current methods–like creating physical maps from BAC libraries. And assembly of all the sequencing data is creating an increasingly larger analysis bottleneck. Genome-Builder accurately positions sequence scaffolds and joins the gaps to decrease the number of scaffolds to 2-3 per chromosome arm.

You can get more accurate data from genome comparisons with a more complete reference–and now Genome-Builder makes it faster and lower in cost. Contact OpGen’s MapIt Services group to discuss your project. You provide the sequence data and DNA, then the MapIt group takes the project from there.

“Physical map and genetic map still should be emphasized as an important parts of a reference genome. Recent progress in technologies, such as the whole genome mapping high-throughput platform offered by OpGen, now provide the tools for efficient physical map construction. This independent technology provides not only the validation of the genome sequencing, but also provides the large-scale chromosome structure information that cannot be detected by sequencing. We applied this technology as an assistant tool of the NGS to assemble bacterial, plant and large mammalian genome with reliable accuracy and generate the sub-chromosome graded assembly. The experience in these genome assembly projects shows that the physical map should be the standard for any reference genome to be assembled in further.”

Xun Xu, Ph.D.

Deputy Director at BGI

This independent technology provides not only the validation of the genome sequencing, but also provides the large-scale chromosome structure information that cannot be detected by sequencing.

Xun Xu, Ph.D.
Deputy Director at BGI

“Our research focuses on a wide variety of projects from viruses and microbes to crop plants and mammals. Many of our projects are de novo assembly projects, where, without a closely related genome sequence, it can be difficult to critically assess the results. We often combine different sequencing technologies, and we are finding that regardless of the sequencing platform, error correction, or assembler used, OpGen’s Whole Genome Mapping identifies misassemblies and provides the highest quality de novo assembly for further research.”

Matthew Clark, Ph.D.

Team Leader, Sequencing Technology Development

The Genome Analysis Centre (TGAC), Norwich, UK

OpGen’s Whole Genome Mapping identifies misassemblies and provides the highest quality de novo assembly for further research.

Matthew Clark, Ph.D.
Team Leader, Sequencing Technology Development

“We adopted OpGen’s Argus System as the most advanced way of adding Whole Genome Mapping to improve whole genome sequences. We combined Whole Genome Maps with sequence assemblies to correct errors and misassemblies in bacterial genome sequences as part of our program in the Human Microbiome Project. We are now moving the technology into larger genome projects.” 

George Weinstock, Ph.D.

Associate Director  The Genome Institute at Washington University

We combined Whole Genome Maps with sequence assemblies to correct errors and misassemblies in bacterial genome sequences. This is part of our program from the Human Microbiome Project.

George Weinstock Ph.D.
 Associate Director 
The Genome Institute at Washington University

“Certain things you just have a tough time answering with de novo sequencing. And assembly doesn’t always work out as sweetly as you would like. So definitely for any whole genome de novo project that people are insistent on closing we would do a Whole Genome Map optically as well as de novo assembly. And the amount of money you would save is in the thousands of dollars in finishing.”

Stefan Green

Director of DNA Services

University of Illinois Chicago Research Resources Center (UIC RRC)

Definitely for any whole genome de novo project that people are insistent on closing we would do a Whole Genome Map.

Stefan Green
Director of DNA Services