Craniofacial anomalies are one of most frequent birth defects worldwide. The patients require long-term treatment, which imposes huge lifetime burdens on patients and their families. It is known that craniofacial anomalies have complicated etiology, which is caused by genetic and environmental factors, as well as their interactions. Predicting and preventing craniofacial anomalies are two of the fundamental topics in developmental biology and developmental toxicology. Thus, genetic and environmental factors should be screened and identified based on mechanistic rationales. Reliable methods and techniques for analyzing detailed mechanisms of craniofacial morphogenesis and malformation will consolidate our knowledge about pathological conditions. In addition, utilization of alternative methods using high-throughput in vitro models or model organisms, and new technologies such as transcriptome analysis and modeling will improve the accuracy of prediction of influences on craniofacial development. This collection will highlight cutting-edge methods and techniques in craniofacial development focusing on developmental biology and toxicology. Our goal for this series is to present (but is not limited to) 1) Methods and technologies for identifying and analyzing genetic and environmental factors causing craniofacial anomalies. 2) Prediction methods and methodologies for gene function and developmental toxicity in craniofacial morphogenesis and malformation. This series will bring beneficial applications from bench to clinics through connecting developmental biology and toxicology and contribute to the prevention and prediction of craniofacial anomalies.