Custom pipeline for relative quantification analysis of protein abundance, cysteine thiol oxidation (“Redox”), and phosphorylation (“Phospho”) experimental sample data using a semi-automated multi-PTM proteomic approach. Cite as Gluth, A., Sagendorf, T., Day, N., & Zhang, T. (2025). R. toruloides...

Extended X-ray absorption fine structure (EXAFS) spectroscopy is crucial for determining the coordination environment of impurities and dopants; however, it requires difficult measurements. X-ray absorption near edge structure (XANES) spectroscopy and X-ray emission spectroscopy (XES) can be...

The research goal of this project is to establish model synthetic microbial communities to understand the rules regulating their biological function in order to utilize them as next generation bioproduction platforms capable of reducing carbon and nitrogen footprints in biomanufacturing processes.

By developing explainable, predictive metabolic models of individual microbes, we aim to design consortia that convert light and abundant atmospheric gases into high-value molecules through microbial division of labor.

The research goal of this project is to develop a biologically informed machine learning (ML) model that integrates datasets from different studies, and leverages current biological knowledge in an automated manner, to improve predictions in biological data analysis.

The research goal of this project is to construct and streamline an approach to identify phenotype-relevant signatures by integrating various proteomics data. Leveraging protein structures and interaction networks, we will map structural changes and post-translational modifications to identify...

The research goal of this project is to identify and control host functions hijacked during viral infection through use of PNNL ‘omics technologies and modeling capabilities.

The research goal of this project is to develop new theory and tools that leverage evolutionary perspectives and knowledge of the energetics of reactions to predict the most likely regulation in a given environment. These methods will accelerate exploration, modeling and understanding of cell...

The research goal of this project is to build and understand model communities that show carbon storage phenotypes

The research goal of this project is to develop computational methods to predict cell regulation phenotypes using small molecule and proteome data to understand outcomes in complex biological systems.

The science objective of this project is to apply structural proteomics technologies to map the molecular interactome.

The research objective of this project is to develop an integrative and automated multi-PTM profiling capability with deep proteome coverage.

The research goal of this project is to use stimuli-specific, synthetic nanobodies to target functional mediators without prior knowledge of the response networks or manipulating the biological system.

The Human Islet Research Network (HIRN) is a large consortia with many research projects focused on understanding how beta cells are lost in type 1 diabetics (T1D) with a goal of finding how to protect against or replace the loss of functional beta cells. The consortia has multiple branches of...

The science objectives of this project are to: Functionally enrich microbial communities and generate multi-omics to correlate biochemical mechanisms to activity. ​ Integrate PhenoProfiling with Thrust Areas 2 and 3 to develop models for phenotype prediction and interspecies interactions.​ Evaluate...