IROA Publications
IROA Publications

Advancing Science.
Enabling Discovery.

Explore peer-reviewed research publications that highlight the power of accurate measurement and innovative analytical solutions.

100+

Publications

5,200+

Citations

250+

Researchers

20+

Countries

Multiple

High-Impact Journals
01
Application Note

HepG2 Labeling and Cell Growth Protocol for IROA Phenotypic Metabolic Profiling

Candice Z. Ulmer, Felice A. de Jong, Chris Beecher, Timothy J. Garrett, Richard A. Yost
View Article
02
Application Note

Isotopic Ratio Outlier Analysis (IROA®) coupled with the Bruker maXis 4G QTOF to investigate changes in the secondary metabolite profiles of Myxobacteria

Daniel Krug, Ullrich Scheid, Aiko Barsch, Sandy Yates, Gabriela Zurek, Rolf Müller, Chris Beecher, Felice de Jong
View Article
03
Application Note

Isotope Ratio Outlier Analysis (IROA) and Variable Window SWATH® Acquisition allows for Unambiguous Metabolite Identification

Chris Beecher, Felice A. de Jong, Baljit K. Ubhi
View Article
04
Application Note

Differential Metabolomic Profiling of Maize Genotypes under Drought-Stressed Conditions using IROA® (Isotopic Ratio Outlier Analysis)

Chris Vlahakis, Jan Hazebroek, Felice de Jong, Chris Beecher
View Article
05
Application Note

Metabolomics of Hermaphroditic C. elegans via Isotopic Ratio Outlier Analysis (IROA) Using High-Resolution, Accurate-Mass LC-MS/MS

Kevin J. McHale, Mark Szewc, Gregory S. Stupp, Chaevien Clendinen, Ramadan Ajredini, Arthur S. Edison, Chris Beecher
View Article
06
Research Article

Achieving Effective Batch-to-Batch Error Correction through Suppression Correction and Dual MSTUS Normalization

Debasish Ghosh, Janmejoy Kar, Felice A de Jong, Chris Beecher, Vladimir Shulaev
Analytical Chemistry 98(15)
April 1, 2026
https://doi.org/10.1021/acs.analchem.5c05210
Open Access
Abstract

Batch effect corrections are necessary to remove instrumentally introduced variance but should retain biological variance. Most common batch correction techniques are based on analysis of quality control (QC) samples, sample amplitude normalization, or other statistical and normalization techniques. Many of these approaches correct for the totality of the MS signal and do not differentiate between analytical and biological variances. In this study, Saccharomyces cerevisiae was treated with four different oxidants at five different time points. Biologically replicated sample sets were…

View Article
07
Research Article

Leveraging untargeted metabolomics in combination with machine learning to uncover novel insights into bladder cancer

Abu Hena Mostafa Kamal, Vasanta Putluri, Tanmay Gandhi, Chandra Shekar R. Ambati, Chandra Sekhar Amara, Karthik Reddy Kami Reddy, Meredith Lauren Spradlin, Amrit Koirala, Felice A de Jong, Chris Beecher
Cancer & Metabolism 14(1)
https://doi.org/10.1186/s40170-026-00427-4
Open Access
Abstract

Untargeted metabolomics has emerged as a powerful approach to uncover metabolic dysregulation associated with cancer progression. When integrated with a machine learning strategy it facilitates the discovery of key metabolic pathways and predictive biomarkers with high diagnostic and prognostic value. In this study, we employed liquid chromatography coupled to high-resolution Tribrid Orbitrap mass spectrometry to perform comprehensive metabolic profiling of bladder cancer (BLCA) as well as predict invasiveness of the disease. By leveraging both in-house retention time-based MS/MS spectral libraries…

View Article
08
Book Chapter

Isotopic Ratio Outlier Analysis (IROA) for Quantitative Analysis

Chris Beecher, Felice A de Jong
Methods in molecular biology (Clifton, N.J.) 2925:69-89
June 1, 2025
https://doi.org/10.1007/978-1-0716-4534-5_4
Abstract

Metabolomics is an omics science that tries to measure the metabolic composition of a sample rapidly, but the current state of the art cannot provide the reproducibility or accuracy needed for clinical use or even daily reproducibility for larger experiments. The IROA TruQuant Workflow uses a daily long-term reference standard (LTRS) and a chemically identical Internal Standard (IS) to provide validated chemical identity, accurate reproducible quantitation, and daily QA/QC (Quality Assurance / Quality Control) on instrument and sample preparation. It…

View Article
09
Research Article

Ion suppression correction and normalization for non-targeted metabolomics

Iqbal Mahmud, Bo Wei, Lucas Veillon, Lin Tan, Sara Martinez, Bao Tran, Alexander Raskind, Felice A de Jong, Yiwei (Eve) Liu, Jibin Ding
Nature Communications
February 1, 2025
https://doi.org/10.1038/s41467-025-56646-8
Open Access
Abstract

Ion suppression is a major problem in mass spectrometry (MS)-based metabolomics; it can dramatically decrease measurement accuracy, precision, and sensitivity. Here we report a method, the IROA TruQuant Workflow, that uses a stable isotope-labeled internal standard (IROA-IS) library plus companion algorithms to: 1) measure and correct for ion suppression, and 2) perform Dual MSTUS normalization of MS metabolomic data. We evaluate the method across ion chromatography (IC), hydrophilic interaction liquid chromatography (HILIC), and reversed-phase liquid chromatography (RPLC)-MS systems in both…

View Article
10
Research Article

Establishing a framework for best practices for quality assurance and quality control in untargeted metabolomics

Jonathan D Mosley, Tracey B Schock, Chris Beecher, Warwick B Dunn, Julia Kuligowski, Matthew R. Lewis, Georgios Theodoridis, Candice Zena Ulmer Holland, Vuckovic Dajana, Ian D Wilson, Krista A Zanetti
Metabolomics 20(2)
February 1, 2024
https://doi.org/10.1007/s11306-023-02080-0
Open Access
Abstract

Background Quality assurance (QA) and quality control (QC) practices are key tenets that facilitate study and data quality across all applications of untargeted metabolomics. These important practices will strengthen this field and accelerate its success. The Best Practices Working Group (WG) within the Metabolomics Quality Assurance and Quality Control Consortium (mQACC) focuses on community use of QA/QC practices and protocols and aims to identify, catalogue, harmonize, and disseminate current best practices in untargeted metabolomics through community-driven activities. Aim of review…

View Article
Showing 1–10 of 121 publications