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Episode 16: From No Codex to One Codex

Featuring Nick Greenfield, MA, Founder & CEO, One Codex


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Show Notes:

In this episode Nick Greenfield, the founder of One Codex, describes his organization’s evolution from a microbiome analysis company in 2014 to a full-service microbial company. Mr. Greenfield shares his transition from CEO to board chair, reflecting on the early days of One Codex when there was no market. He also emphasizes the company’s focus on reducing complexity for the user, providing a high-quality result, and making new types of data more accessible for a large audience. Mr. Greenfield then shares some of One Codex’ positive contributions to the biological community and the general market.


Nick Greenfield headshot

Nick Greenfield, MA

Founder & CEO, One Codex

Nick Greenfield, M.A., is the founder and CEO of One Codex, a microbial genomics software company based in San Francisco, California. One Codex is the leading microbial genomics and metagenomics platform, and has received awards from the Centers for Disease Control (CDC) and Department of Defense (DoD) as well as been recognized by the White House National Microbiome Initiative. At One Codex, Nick leads the development of the company's bioinformatics and software technology, and oversees the company's efforts in application areas including infectious disease diagnostics, microbiome R&D, and public health. Prior to One Codex, Nick worked as a software engineer and data scientist on a variety of machine learning and scientific computing problems. Nick holds a B.A. in International Relations and a M.A. in Environmental Studies from Brown University.


David Yarmosh, headshot.

David Yarmosh, MS

Lead Bioinformatician, ATCC

David Yarmosh is a senior bioinformatician in ATCC’s Sequencing and Bioinformatics Center. He’s a graduate of New York University’s Tandon School of Engineering. He has been working in large data aggregation and analysis since 2013 and microbial genomics with a focus on biosurveillance R&D efforts since 2016. David has led international training exercises in Peru and Senegal, sharing metagenomic analytical capabilities. His interests include genomics database construction, metadata collection, drug resistance mechanisms, bioinformatics standards, and machine learning. Since joining ATCC in 2020, he has helped develop the podcast Behind the Biology, which he now hosts.

Learn about the initiatives implemented through this partnership

Clear blue DNA helix strand.

ATCC Genome Portal

Through our partnership with One Codex, we successfully launched the ATCC Genome Portal in the fall of 2019. This rapidly growing ISO 9001–compliant database boasts thousands of high-quality reference genomes and associated metadata that are derived from authenticated microbial strains in the ATCC collection. Through this cloud-based platform powered by One Codex, researchers can easily access and download meticulously curated whole-genome sequences from their browser or a secure API.

Learn more about the ATCC Genome Portal
DNA rods with bacteria.

NGS Standards

To bring microbiome research to the next level, ATCC and One Codex partnered to provide an end-to-end solution for optimizing metagenomics workflows from sample collection to data analysis. With ATCC's NGS Standards paired with One Codex's bioinformatics platform, researchers are able to challenge their standardization process and perform comprehensive analyses that provide automated quality scores assessing true positives, false positives, and relative abundance.

Learn more about our NGS Standards

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