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)
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.
Douglas Mans (PNNL)
Douglas oversees the entire EMSL user program and serves as the primary interface with BER, PNNL and the user community for science, management, and operations of EMSL. He is responsible for establishing a scientific vision to attract outstanding staff scientists and users to EMSL facilities and programs, promoting innovative research, and fostering the creation of robust scientific teams and communities.
Patrick Chain (LANL)
Patrick is a Los Alamos National Laboratory Research Fellow, and is the head of Bioscience Division's Bioinformatics and Genome Analytics group, and a senior scientist within the Biosecurity and Public Health Group.
Kjiersten Fagnan (LBNL)
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.
Lee Ann McCue (PNNL)
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)
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.
Shreyas Cholia (LBNL)
Shreyas leads the Usable Software Systems Group in the Scientific Data Division at Berkeley Lab. He has extensive experience as a technical leader and software engineer across a diverse range of interdisciplinary teams, including ESS-DIVE, Materials Project, and the NERSC Jupyter projects.
NMDC Team Members
Faiza Ahmed (Kitware, Inc. )
Faiza is a UI/UX designer at Kitware. She has been providing complex user interface design solutions for several years. She joined the NMDC team in Feb-2020 where she works on data portal UI design.
Michal Babinski (LANL)
Michal is a bioinformatics graduate student intern at LANL. He is involved in workflow testing and checking to make sure reproducibility is achieved within and between environments. On the NMDC team he ensures consistency is accounted for in workflow processing and output, an essential part of setting the reproducibility standards for NMDC. He is a Master's student in Bioinformatics and Genomics at the University of Oregon.
Jeff is the Director of Data and Analytics at Kitware Inc. The Data and Analytics team creates production-ready web services and interfaces for data-oriented discovery, with a focus on open source and open science solutions.
Shane Canon (LBNL)
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.
Yuri Corilo (PNNL)
Yuri is a computational scientist in the Environmental Molecular Sciences Laboratory (EMSL) at PNNL. He joined PNNL in 2019 after six years as a Research Scientist and four years serving as the director of computational science for the Ion Cyclotron Resonance (ICR) program at the National High Magnetic Field Laboratory (NHMFL). He received his Ph.D. in Organic Chemistry from the University of Campinas and has over ten years of experience in the development of scientific software applied to complex mixtures characterization by high-resolution mass spectrometry.
Brandon Davis (Kitware, Inc. )
Brandon is a software engineer at Kitware with a focus on front-end web development. He works primarily on the NMDC data portal client.
Mark Flynn (LANL)
Mark is a software developer at Los Alamos National Laboratory (LANL). He received his Ph.D. in Neurobiology from the University of Delaware in 2001 and M.S. in Computer science from the University of New Mexico in 2011. He has worked in both industry and academia, using HPC and cloud systems, in a variety of roles including as a developer, architect and as a devops engineer.
Marcel Huntemann (LBNL)
Marcel is a Computer Systems Engineer at the DOE Joint Genome Institute and has over 15 years of experience in developing tools to help analyze microbial datasets. He joined the JGI in 2007 and is currently the head of the IMG Pipelines group. He holds a M.S. degree in Computer Science from the University of Bremen, Germany and worked as a Scientific Programmer at the Max Planck Institute for Marine Microbiology prior to coming to the JGI.
Bin Hu (LANL)
Bin Hu is a staff scientist at Los Alamos National Laboratory. His current research interests are on computational inference of phenotype using genotype information, antibody dynamics, bioinformatics software algorithm, and software development.
Elais Player Jackson (LANL)
Elais Player is an application developer at Los Alamos National Laboratory (LANL). He has more than ten years of work experience in both academia and industry writing software for use science, finance, and supply-chain management. His current interests include reproducible software deployment for high-performance computing and smart visualization of genomics data and analysis.
Patrick Kalita (LBNL)
Patrick is a software developer in the Environmental Genomics and Systems Biology (EGSB) Division at LBNL. He has extensive experience in both frontend and backend web development for scientific applications and biological and environmental databases.
Julia Kelliher (LANL)
Julia Kelliher is a post-Masters student in the Biosecurity and Public Health Group at the Los Alamos National Laboratory (LANL). She received a Bachelor’s degree in Neuroscience from Skidmore College and an M.S. in Biotechnology from Johns Hopkins University. Since joining LANL in 2017, she has worked on a variety of projects focused on the gut microbiome, the soil microbiome and bacterial-fungal interactions, as well as infectious disease and biothreat detection and treatment.
Po-E “Paul” Li (LANL)
Po-E (Paul) Li is a senior level bioinformatician with formal education in computer science and MS in bioinformatics, and 10+ years of professional experience in designing and implementing pipelines and algorithms for analyzing genomic and sequencing data. As a research technologist at Los Alamos National Laboratory, he has had a focus on assay design, signature identification, microbiome analysis, taxonomic profiling and transforming results to visualization.
Chien-Chi Lo (LANL)
Chien-Chi Lo is a research technologist at Los Alamos National Laboratory (LANL). He has more than 10 years of work experience on developing bioinformatics workflows, analytical software, and genomic data analysis. He holds two M.S. degrees: in Bioinformatics from the National Yang-Ming University, Taipei, Taiwan; and in Computer Science from the University of New Mexico.
Mark Miller (LBNL)
Mark has held laboratory and computational roles at workplaces including the University of Pennsylvania’s dental and medical schools and Merck Vaccine Basic Research. Mark holds an MS in bioinformatics from the University of the Sciences in Philadelphia and identifies as an ontologist.
Sujay Patil (LBNL)
Sujay Patil is a Bioinformatics Software Engineer and contributes to the metadata standards activities. Sujay has computational expertise and works on developing software tools for faster, reproducible research.
Paul Piehowski (PNNL)
Paul is a staff scientist and Team Lead for proteomics in EMSL. He joined PNNL 10 years ago as a post-doctoral researcher and has over 15 years experience applying mass spectrometry to biological research, primarily in the fields of proteomics and metabolomics.
Samuel Purvine (PNNL)
Sam Purvine has worked in bottom-up mass spectrometric proteomics since 1998, with deep knowledge of all aspects of the art. He serves as final data product liaison for EMSL Users who wish to use the mass spec proteomics capability.
Marisa Rudolph (LBNL)
Marisa has a B.S. in Environmental Science and Political Science from Santa Clara University. Before joining the NMDC, she studied how private companies, public entities, and collaborative institutions work together to further a shared goal as a Fulbright Research Fellow. In her current role, she supports strategic partnerships to further NMDC's mission to enable widespread FAIR microbiome data generation.
Setareh Sarrafan (LBNL)
Setareh joined Berkeley Lab in February 2021. She previously worked at both UC Berkeley and UC San Francisco as a Scrum Master, Product Owner, Project Manager and Informatics Implementation Manager.
Montana Smith (PNNL)
Montana is an earth scientist at PNNL in the Environmental Molecular Sciences Division (EMSD). She works primarily on soil systems studying microbial ecology and the effects of environmental perturbations on carbon and nitrogen cycling.
Migun Shakya (LANL)
Migun Shakya is a staff scientist at Los Alamos National Laboratory (LANL). He received his Ph.D in Genome Science from the University of Tennessee at Knoxville in 2013. His current research interests include terrestrial viruses and their effect on ecosystems, large scale comparative metagenomics using k-mers, and development of workflows to analyze whole genome and transcriptomic datasets.
Pajau Vangay (LBNL)
Pajau is the Scientific Community Engagement Manager for the NMDC. She joins the Berkeley Lab with combined experiences in computational biology, community outreach, and public policy. Most recently, she led the Immigrant Microbiome Project.
Donny Winston (Polyneme, LLC)
Donny studied electrical engineering and computer science (EECS) at the University of California at Berkeley and completed his master’s and PhD degrees in the EECS department at MIT. Donny was the principal web developer (full-stack) and data/systems engineer for the Materials Project at LBNL. He now runs a software and data consulting practice, with expertise in helping researchers do data-intensive science together.
Yan Xu (LANL)
Yan Xu is a software developer at Los Alamos National Laboratory. She has 18 years of experience in software development, database design, system testing and end user support. Yan develops customized software and web-based applications for use in bioscience related projects.
Simon Roux (LBNL)
Dr. Roux joined the JGI in 2017 to lead viral genomics research as part of the Metagenome Program. His responsibilities include the development of novel computational tools to identify and characterize virus sequences, the design of new experimental approaches to link viruses to their host(s), collaboration with JGI users for analyzing viral datasets, and the organization of community-building efforts in the field of viral ecogenomics.
Grant Fujimoto (PNNL)
Grant Fujimoto is a full stack software engineer in the National Security Directorate. He focuses on developing reliable, maintainable, and scalable solutions for a variety of government sponsors. He has experience developing applications in the cloud, high performance algorithms, desktop applications, SQL and document databases, and UI work as well.
Antonio Camargo (LBNL)
Antonio Camargo is a scientist at the Joint Genome Institute, where he integrates the Microbiome Data Science group. His current work involves the development of computational methods to allow large-scale analysis of the ecology and diversity of mobile genetic elements.
Kevin Fox (PNNL)
Kevin Fox is an information technology engineer in the Advanced Scientific Computing team in PNNL’s Environmental Molecular Sciences Division and the Environmental Molecular Sciences Laboratory (EMSL) user program. He is a system administrator and software developer who maintains multiple Kubernetes clusters, as well as workloads that run within it.
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