Aivett Bilbao Pena

Development of an Environmental-Focused DIA Pipeline for HTP Proteomics

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Isaac Attah

Currently, metaproteomics workflows are hindered by sample complexity which necessitates fractionation of the sample meaning one sample can require 12 to 24 MS analyses. Data dependent workflows …

Nanodroplet sampling processing platform for amine containing metabolites in single Yarrowia lipolytical fungal protoplasts

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Sarah Williams

Single-cell metabolomics of bioproduction organisms such as Yarrowia lipolytica could significantly enhance our understanding of functional heterogeneity, yet remains a challenge due to limited input…

Deep learning approaches to probe bioaerosols in the atmosphere

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Swarup China

Bioaerosols play a key role in cold cloud formation and impacts ice phase precipitation in the atmosphere and ecosystem via deposition of essential micronutrients. EMSL’s micro-spectroscopy…

Advanced MS instrumentation and methods for functional proteomics

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Jared Shaw

This proposal addresses a critical need to continue to upgrade the spectrometer for the 21T FTICR-MS in order to keep this flagship capability on the leading edge of technology. The proposed work…

Identifying and Quantifying Sources of Variability in FTICR

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Allison Thompson

Many EMSL users are requesting Fourier transform ion cyclotron resonance (FTICR) soil organic matter (SOM) data. However, there are many circumstances where results are unexpected and experts…

A Multi-Omics Data Exploration and Integration Web Application

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Lisa Bramer

In the biological and environmental sciences, data are being generated at an unprecedented rate. There are many scientific discoveries pertinent to DOE missions that are waiting to emerge from high…

Advanced 21T FTICR MS instrumentation and methods for functional proteomics

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

William Kew

The 21T FTICR-MS at the EMSL provides extremely high mass accuracy and resolution enabling superior depth of characterization for natural organic matter and intact mass measurement of denatured…

Development of a functional proteomics workflow for characterization of glycoproteins

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Mowei Zhou

Glycosylation is a diverse family of post-translational modification (PTM) that affects protein structure/function but is not directly encoded in the genome, and represents significant challenge for…

Novel Interactomics Workflow for Protein-Protein and Protein-Lipid Interactions

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Stephanie Thibert

Macromolecular assemblies in cell membrane and organelles are compositionally and structurally complex and their identification and characterization represent a major barrier to understanding…

Automating the data analysis workflow for relative quantitation of isomeric proteoforms based on fragment-ion intensities in top-down LC-MS/MS analyses

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Aivett Bilbao Pena

We will develop a software tool for relative quantitation of isomeric proteoforms based on fragment-ion intensities in liquid chromatography-tandem mass spectrometry (LC-MS/MS) data from top-down…

Robust data analysis tool for locating lipid C=C double bonds and isomer separation

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Xueyun Zheng

A complete lipidomics workflow that enables isomer separation and complete structural elucidation is being developed. The goal of this project is to develop robust bioinformatics tools that allow…

EMSL Science Overview

Aivett Bilbao Pena

Projects

Development of an Environmental-Focused DIA Pipeline for HTP Proteomics

Nanodroplet sampling processing platform for amine containing metabolites in single Yarrowia lipolytical fungal protoplasts

Deep learning approaches to probe bioaerosols in the atmosphere

Advanced MS instrumentation and methods for functional proteomics

Identifying and Quantifying Sources of Variability in FTICR

A Multi-Omics Data Exploration and Integration Web Application

Advanced 21T FTICR MS instrumentation and methods for functional proteomics

Development of a functional proteomics workflow for characterization of glycoproteins

Novel Interactomics Workflow for Protein-Protein and Protein-Lipid Interactions

Automating the data analysis workflow for relative quantitation of isomeric proteoforms based on fragment-ion intensities in top-down LC-MS/MS analyses

Robust data analysis tool for locating lipid C=C double bonds and isomer separation