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Dataset
KS-TmG.2.0

Complete replicate terabase metagenome (TmG.2.0) of grassland soil microbiome collections from KPBS field site in Manhattan, KS. Metagenome (unclassified soil sequencing) Data DOI Package, version 2.0.

Earth System Science
Biology
WA-TmG IAREC
Dataset
IA-TmG.2.0

Complete replicate terabase metagenome (TmG.2.0) of grassland soil microbiome collections from COBS field site in Boone County, IA. Metagenome (unclassified soil sequencing) Data DOI Package, version 2.0.

Biology
Earth System Science
WA-TmG IAREC
Dataset
WA-TmG.2.0

Complete replicate terabase metagenome (TmG.2.0) of grassland soil microbiome collections from IAREC field site in Prosser, WA. Metagenome (unclassified soil sequencing) Data DOI Package, version 2.0.

Earth System Science
Biology
WA-TmG IAREC
Publication
DNA viral diversity, abundance and functional potential vary across grassland soils with a range of historical moisture regimes

Viral communities detected from three large grassland soil metagenomes with historically different precipitation moisture regimes.

Biology
Earth System Science
Publication
High-throughput genetic engineering of nonmodel and undomesticated bacteria via iterative site-specific genome integration

Elmore JR, Dexter GN, Baldino H, Huenemann JD, Francis R, Peabody GL 5th, Martinez-Baird J, Riley LA, Simmons T, Coleman-Derr D, Guss AM, Egbert RG. High-throughput genetic engineering of nonmodel and undomesticated bacteria via iterative site-specific genome integration. Sci Adv. 2023 Mar 10;9(10)...

Scientific Discovery
Biology
Microbiome Science
Publication
Sorgoleone degradation by sorghum-associated bacteria; an opportunity for enforcing plant growth promotion (pre-print)

Metabolite exchange between plant roots and their associated rhizosphere microbiomes underpins plant growth promotion by microbes. Sorghum bicolor is a cereal crop that feeds animals and humans and is used for bioethanol production. Its root tips exude large amounts of a lipophilic benzoquinone...

Scientific Discovery
Biology
Microbiome Science
Publication
Learning perturbation-inducible cell states from observability analysis of transcriptome dynamics

A major challenge in biotechnology and biomanufacturing is the identification of a set of biomarkers for perturbations and metabolites of interest. Here, we develop a data-driven, transcriptome-wide approach to rank perturbation-inducible genes from time-series RNA sequencing data for the discovery...

Scientific Discovery
Biology
Microbiome Science
Dataset
Dataset for SIAM MPI23 Project "Model inversion for complex physical systems using low-dimensional surrogates"

HDF5 file containing 10,000 hydraulic transmissivity inputs and the corresponding hydraulic pressure field outputs for a two-dimensional saturated flow model of the Hanford Site. The inputs are generated by sampling a 1,000-dimensional Kosambi-Karhunen-Loève (KKL) model of the transmissivity field...

Computational Mathematics & Statistics
Data Analytics & Machine Learning
Data Source
PacBio Sequel II Sequencing System

The Sequel II System Sequencer is a high-throughput DNA sequencer machine developed and manufactured by PacBio , and is designed for high throughput, production-scale sequencing laboratories. Originally released in 2015, the Sequel system provides Single Molecule, Real-Time (SMRT) sequencing core...

Scientific Discovery
Biology
Human Health
Microbiome Science
Earth System Science
Project
Biomedical Resilience & Readiness in Adverse Operating Environments (BRAVE)
The Biomedical Resilience & Readiness in Adverse Operating Environments (BRAVE) Project develop new capabilities to improve health and performance of first responders in adverse operating environments common to national defense. The BRAVE project analyze biological samples, collect physiological...
Chemical & Biological Signatures Science
Biology
Human Health
Integrative Omics

  1. Datasets

    1
Project
Persistence Control of Engineered Functions in Complex Soil Microbiomes (PerCon SFA), Secure Biosystems Design Project

Last updated on 2023-02-23T19:37:46+00:00 by LN Anderson PerCon SFA Project Publication Experimental Data Catalog The Persistence Control of Engineered Functions in Complex Soil Microbiomes Project (PerCon SFA) at Pacific Northwest National Laboratory ( PNNL ) is a Genomic Sciences Program...

Scientific Discovery
Biology
Microbiome Science
Earth System Science

  1. Datasets

    3
Project
AI/ML Ready Datasets for Type 1 Diabetes

Machine learning is a core technology that is rapidly advancing within type 1 diabetes (T1D) research. Our Human Islet Research Network (HIRN) grant is studying early cellular response initiating β cell stress in T1D through the generation of heterogenous low- and high-throughput molecular...

Scientific Discovery
Biology
Human Health
Data Analytics & Machine Learning

  1. Datasets

    3
Project
TEDDY AI/ML Ready Datasets and Models

The Environmental Determinants of Diabetes in the Young (TEDDY) study is searching for factors influencing the development of type 1 diabetes (T1D) in children. Research has shown that there are certain genes that correlate to higher risk of developing T1D, but not all children with these genes...

Biology
Human Health
Data Analytics & Machine Learning

  1. Datasets

    1
Project
DAISY AI/ML Ready Datasets and Models

The Diabetes Autoimmunity Study in the Young (DAISY) seeks to find environmental factors that can trigger the development of type 1 diabetes (T1D) in children. DAISY follows children with high-risk of developing T1D based on family history or genetic markers. Genes, diets, infections, and...

Biology
Human Health
Data Analytics & Machine Learning

  1. Datasets

    1
Person
Ernesto Nakayasu

Biography Ernesto Nakayasu is a senior research scientist focused on understanding molecular mechanisms of diseases. Nakayasu has been applying systems biology and mass spectrometry-based omics measurements to study how pathogens and metabolic alterations cause human diseases; the goal is to...

Integrative Omics