Campbell, J. P. | bioRxiv Science

bioRxiv2026

Performance Evaluation of a Quantitative Metabolomics Workflow Incorporating Microchip Capillary Electrophoresis, Indexed Migration Time, and Single-Point External Calibration

Capillary electrophoresis-mass spectrometry (CE-MS) offers unique analytical advantages for polar metabolite profiling but has remained underutilized in metabolomics relative to liquid chromatography-MS (LC-MS), in part due to challenges in managing migration time drift during data analysis. Here we introduce the use of indexed migration time (iMT) for easily managing this aspect of CE-MS data for metabolomics. Migration time indexing using a panel of stable isotope-labeled (SIL) amino acid reference standards, stored as an iRT database in Skyline, outperformed both uncorrected migration time and relative migration time (RMT) correction across three independent analytical batches spanning 90 samples from four biological matrices. The indexed migration time approach achieved sub-1% relative standard deviation (RSD) in migration index across batches, compared to up to ~15% RSD for uncorrected migration times. Additionally, we evaluate the use of single-point external calibration in Skyline for the purposes of metabolite quantification from complex matrices in order to ease the burden of translational metabolite quantification from metabolomics using high-resolution mass spectrometry (HRMS). Single-point external calibration using a biological matrix-based calibrator was benchmarked against a 13-point linear calibration curve across a panel of amino acids; above 1 M, greater than 95% of back-calculated concentrations fell within {+/-}20% of multi-point calibration. Application of the complete workflow to plasma, serum, urine, and NIST Standard Reference Material (SRM)-1950 demonstrated low inter-batch variability by principal components analysis, broad metabolite coverage across 126 quantifiable analytes, and strong quantitative concordance (Deming slope = 0.862, pseudo-R2 = 0.994, n = 64 analytes) with an independent comprehensive reference dataset for NIST SRM-1950. Together, these results establish a practical mCE-HRMS metabolomics workflow that bridges targeted and discovery metabolomics paradigms and lays the groundwork for single-point external calibration as a powerful tool for translational metabolomics.

molecular biology↗

bioRxiv2022

Vascular tortuosity quantification as an outcome metric of the oxygen-induced retinopathy model of ischemic retinopathy

The murine oxygen-induced retinopathy (OIR) model is one of the most widely used animal models of ischemic retinopathy, mimicking hallmark pathophysiology of initial vaso-obliteration (VO) resulting in ischemia that drives neovascularization (NV). In addition to NV and VO, human ischemic retinopathies including Retinopathy of Prematurity (ROP) are characterized by increased vascular tortuosity. Vascular tortuosity is an indicator of disease severity, need to treat, and treatment response in ROP. Current literature investigating novel therapeutics in the OIR model report their effects on NV and VO, but no standardized quantification of vascular tortuosity exists to date despite this metrics relevance to human disease in clinics. The current proof-of-concept study applied a computer-based image analysis algorithm capable of calculating standardized measurements of vascular tortuosity. Quantification of vascular tortuosity correlated with disease activity in OIR analogously to that observed in infants with ROP. Treatment of OIR mice with anti-Vascular Endothelial Growth Factor (aflibercept) rescued vascular tortuosity in the model. Altogether, these data demonstrated that vascular tortuosity is a quantifiable feature of the OIR model and may be used as an outcome measurement in future studies investigating new treatment modalities for retinal ischemia.

neuroscience↗