The One Codex Blog

We are excited to announce that One Codex is launching a new partnership with 4bases! 4bases is a Swiss based company with an aim to address unmet medical needs in precision medicine, with clinically-validated and cost-effective solutions for healthcare professionals. One Codex’s mission to enable translational applications of metagenomics and microbiome science strongly aligns with this aim. Notably, this partnership expands One Codex’s reach to European researchers and clinicians.

We are thrilled to announce the largest update to our database to date, which now encompasses over 148,000 high-quality reference genomes spanning the entire taxonomic tree. The benefits of increasing the taxonomic breadth of our classifier are multiplied when combined with analytical workflows for microbiome discovery, clinical metagenomics, and genomic epidemiology.

We are happy to announce that One Codex now supports importing data from the Sequence Read Archive (SRA), allowing for quick comparison and analysis of publicly available sequencing data and associated metadata.

Today we’re pleased to announce the latest update and expansion to the One Codex Database! This update includes the most recent revision of the NCBI taxonomy, improves characterization of complex microbial communities, and increases coverage of species present in the mouse gut microbiome. This release marks our most comprehensive database yet, cataloging over 127,000 genomes across more than 80,000 species.

For a comprehensive list of what’s included, check out our references page.

On behalf of the whole One Codex team, I’m delighted to share that we have spun out One Codex from Invitae as an independent company! I’m extremely grateful to our customers and our team, past and present, for making this transition possible.

For everyone who relies on the One Codex platform as the home for their metagenomics research, here are the key points you need to know:

• The One Codex Platform will continue to be available and operate as-is with no interruptions in service.
• The majority of the One Codex team has decided to join the new company and is committed to ensuring the success of the platform and our customers. Many of these folks have been with us for 2+ years, even before we joined Invitae. We’re also excited to welcome a couple of new team members that joined us last year at Invitae!
• An important part of this process has been maintaining a strong strategic relationship with Invitae for lab services, letting us continue to support our customers with rapid and flexible shotgun microbiome sequencing and analysis.
• Importantly, there will be no changes to the sequencing workflow, so you can count on the same quick turn-around time and quality for sequencing data.

For those considering One Codex for your upcoming microbiome sequencing projects, this means we will continue to have the flexibility and scalability required to support our rapid, cost effective microbiome sequencing program to the same high standard as always. For customers who have worked with us previously, it means there are no changes to the data generation workflow that could otherwise introduce risk or technical variability into your data.