Neurons are the constituent parts of our nervous system whose function is to transmit electrical and chemical signals, allowing the communication and processing of information throughout the body. Neurons connect among themselves through synapses to make neuronal networks, where each has its own function in the nervous system. Models are sets of assumptions about a system, and their worth is in the generation of new knowledge that can be used to predict experimental results or confirm understanding of phenomena in a system. Models can be thought of in terms of model animals like fruit flies or mice, or they can be thought of as computer programs modelling molecular processes. The history of modelling in neuroscience goes back to the mid-20th century, when Hodgkin and Huxley described the giant squid axon model and uncovered the secrets of action potential propagation. Studying the neuromuscular junction uncovered the secrets of synaptic transmission of electric impulses. Exploring the columnar organization of the visual cortex yielded the discovery of neuronal networks and patterns of their activity. With the advance of technology, it became possible to simulate a large number of neurotransmitters in synapses, neurons with numerous compartments and ion channels, neuronal networks with large populations, and vast amounts of biological and artificial neuronal morphologies. By integrating morphological and functional models into one tool, the acquisition of new knowledge is enabled, which can help in solving the mysteries of synapses, neurons, and neuronal networks.