The compartmentalization of reactions in femtoliter (fL) containers and integration of fL containers into arrays not only enhances and accelerates chemical and biochemical analysis but also leads to new scientific methods and insights. This review introduces various fL container and array formats and explores their applications for the detection and characterization of biologically relevant analytes. By loading analytes, sensing elements, or cells into fL arrays, one can perform thousands of analytical measurements in parallel. Confining single enzyme molecules in fL arrays enables one to analyze large numbers of individual enzyme molecules simultaneously in solution. New nanofabrication techniques and progressively more sensitive detection methods drive the field of fL analytical chemistry. This review focuses on the progress and challenges in the field of fL analytical chemistry with examples of both basic and applied research.