Pediatric acute kidney injury (AKI) is associated with increased morbidity, mortality and associated healthcare costs. Unfortunately, there are currently no effective therapies available, and this has been attributed in part to the late diagnosis of AKI. Therefore, significant efforts have been made to develop early diagnostic tools for AKI in the hope that early identification of renal injury will allow for effective therapeutic intervention. Different transcriptomic, proteomic and metabolomic technologies offer unbiased approaches to identifying novel biomarkers of AKI. This review will provide an overview of non-invasive pediatric AKI biomarkers. It will focus on unbiased technologies by using examples of biomarkers identified with “-omic” technologies and different methodological and implementation challenges will be highlighted. Finally, emerging proteomic techniques that may be applicable to biomarker discovery will be presented. Ultimately, the development of novel biomarkers of AKI may lead to the early diagnosis and effective therapeutic intervention of AKI to improve patient outcomes.