Dr. Lynch is the Co-Director of the Core Clinical Laboratory at San Francisco General Hospital overseeing Chemistry and Toxicology. She is also the Director of Chemistry at UCSF Children's Hospital Oakland. Her research laboratory primarily focuses on identifying and quantifying endogenous and exogenous compounds in biological specimens using novel diagnostic technologies, such as mass spectrometry and biolayer interferometry, and correlating the findings with clinical pathologies. They are involved in translational research studies aimed at the clinical evaluation of novel biomarkers or biomarker panels to diagnosis, treat and monitor disease. The Lynch lab has developed numerous liquid-chromatography tandem mass spectrometry (LC-MS/MS), liquid-chromatography quadrupole time-of-flight (LC-QTOF) mass spectrometry, and label-free immunoassay methods for the detection and quantitation of small molecules and proteins in biological specimens. The methods they develop are used to investigate perturbations in metabolic pathways caused by disease and toxicological exposure. They aim to translate results into information that can be used in clinical practice bridging laboratory research and clinical research through multidisciplinary collaboration and methodologies.