A collaborative partnership united by a single vision

The NMDC enables the microbiome research community to decode the molecular underpinnings of fundamental biological processes, and ultimately, drive transformational discoveries.

Advancing microbiome science, together

Founded to support the long-term advancement of microbiome science, the NMDC is building an open-source, agile, integrated data system. Our scientific mission is to provide comprehensive access to multidisciplinary microbiome data and an initial suite of bioinformatic tools for reproducible, cross-study advanced analyses.

Photo: Lance E. King

Engaging the research community

The NMDC seeks to connect the microbiome community to new data resources, and each other, in a way that unlocks new possibilities with microbiome data science. We focus on broad and inclusive activities, along with active partnerships, to empower the broader research community to participate in the data curation, discovery, and analysis process. This regular and continuous engagement ensures development aligns and adapts to the current and future needs of the research community.

Forging a foundation on guiding principles


Community-driven and accepted

Continued development to address future needs


Curation and quality control to ensure data adhere to those standards


Standardized, reproducible analytical pipelines across heterogeneous data sets


Discovery based on scientific inquiry

Search using existing data

NMDC Leadership Team

Emiley Eloe-Fadrosh (LBNL)

Emiley joined the Joint Genome Institute at Berkeley Lab in 2014 to pursue microbial ecology and metagenomics research. She is Head of the Metagenome Program and leads the Environmental Genomics Group.

Nigel Mouncey (LBNL)
NMDC Deputy Lead

In 2017, Nigel became the Director of the Joint Genome Institute at Berkeley Lab after nearly 19 years leading Industry research and development teams. He also leads the Secondary Metabolites Group.

Alison Boyer (ORNL)
Aim 1 Lead

As Chief Scientist for the Distributed Active Archive Center at Oak Ridge National Laboratory, Alison’s projects focus on data publication and management for NASA’s Terrestrial Ecology and Carbon Cycle & Ecosystems Programs.

Lee Ann McCue (PNNL)
Aim 1 Lead

With over 20 years in comparative genomics and high-throughput data analyses, Lee Ann is a senior computational scientist at the Pacific Northwest National Laboratory.

Chris Mungall (LBNL)
Aim 1 Lead

Chris is head of Molecular Ecosystems Biology in Environmental Genomics and Systems Biology at Berkeley Lab. His group builds integrated databases, algorithms, and ontologies for various bioscience applications.

Patrick Chain (LANL)
Aim 2 Lead

Patrick leads teams in Metagenomics Applications, Bioinformatics and Analytics, and Genome Programs in the Biosciences Division at Los Alamos National Laboratory.

Shane Canon (LBNL)
Aim 2 Lead

Shane is a Senior Engineer at KBase and Berkeley Lab’s Supercomputing Facility. For over 20 years, he has helped scientists conduct breakthrough science using some of the fastest computers in the world.

Kjiersten Fagnan (LBNL)
Aim 3 Lead

Kjiersten is Chief Informatics Officer and Data Science and Informatics Department Head at the Joint Genome Institute, Berkeley Lab. She has over 10 years of experience in scientific computing and experimental data analysis.

Elisha Wood-Charlson (LBNL)
Aim 4 Lead

Elisha is KBase’s User Engagement Lead at Berkeley Lab. With a decade of experience in microbial ecology and scientific community engagement, she leads several projects aimed at making microbiome data science more efficient.

Stanton Martin (ORNL)
FAIR Strategic Team Lead

Stanton leads data management for Oak Ridge National Laboratory’s Biosciences Division. He has over 15 years of experience using new technologies to manage data acquisition, curation, and sourcing.

Project Aims

The NMDC delivers a set of unique data science capabilities.

Design NMDC-compliant metadata standards

Leverage existing ontology mapping software and curation resources to enable automated annotation of standardized metadata.

Design and deploy NMDC-compliant data workflows

Develop microbiome workflows for metagenome, metatranscriptome, metaproteome, and metabolomics data processing leveraging HPC systems, and integrate the execution of these pipelines to produce NMDC-compliant data products.

Data facilitation and integration

Develop data registration, indexing, and access services to link data through a suite of publicly available APIs.

NMDC community engagement

Develop communication and sustainability strategies to assess current and future needs and capabilities to empower users, collaborate on web-based interfaces for search functionality, and promote the NMDC to the larger scientific community.

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