David Degnan

Publications

• Advances and prospects for the Human BioMolecular Atlas Program (HuBMAP)
• Discovery Top-Down Proteomics in Symbiotic Soybean Root Nodules
• The Superfund Research Program Analytics Portal: linking environmental chemical exposure to biological phenotypes
• Evaluating Retention Index Score Assumptions to Refine GC–MS Metabolite Identification
• Gaussian Mixture Modeling Extensions for Improved False Discovery Rate Estimation in GC–MS Metabolomics
• PSpecteR: A User-Friendly and Interactive Application for Visualizing Top-Down and Bottom-Up Proteomics Data in R
• Spatially Resolved Top-Down Proteomics of Tissue Sections Based on a Microfluidic Nanodroplet Sample Preparation Platform
• pmartR 2.0: A Quality Control, Visualization, and Statistics Pipeline for Multiple Omics Datatypes
• IsoMatchMS: Open-Source Software for Automated Annotation and Visualization of High Resolution MALDI-MS Spectra
• Enter Gaussian Mixture Modeling Extensions for Improved False Discovery Rate Estimation in GC-MS Metabolomics
• Expanding the access of wearable silicone wristbands in community-engaged research through best practices in data analysis and integration
• Characterizing Families of Spectral Similarity Scores and Their Use Cases for Gas Chromatography–Mass Spectrometry Small Molecule Identification
• Overall protocol for 2D intact proteoform mapping by MALDI imaging v1
• Data to Accompany: Expanding the access of wearable silicone wristbands in community-engaged research through best practices in data analysis and integration
• Image Visualization and Proteoform Assignment of MALDI-MSI from LCMS Experimental Databases v1
• PMart Web Application: Marketplace for Interactive Analysis of Panomics Data
• Race-Specific Risk Factors for Homeownership Disparity in the Continental United States
• Discovery top-down proteomics in symbiotic soybean root nodules
• Spatial top-down proteomics for the functional characterization of human kidney
• IsoForma: An R Package for Quantifying and Visualizing Positional Isomers in Top-Down LC-MS/MS Data
• Parallel measurement of transcriptomes and proteomes from same single cells using nanodroplet splitting
• Protein–Protein Interaction Networks Derived from Classical and Machine Learning-Based Natural Language Processing Tools
• FREDA: A Web Application for the Processing, Analysis, and Visualization of Fourier‐Transform Mass Spectrometry Data
• MODE: A Web Application for Interactive Visualization and Exploration of Omics Data