Biological Data is the thread that links three rapidly emerging fields of science i.e. Bioinformatics, System biology and Big Data, being used to understand and improve the quality of human life. The dataset ranges from the DNA sequence of an organism to gene expression levels and finally to signalling pathways. This monograph presents the interdependency of bioinformatics, System biology and Big Data, their methods, applications and future directions and challenges. Bioinformatics resources enable the study global features of a biological system that can be used for development of novel therapeutics. These biological models are simulations of mathematical and computational algorithms. Vertical-omics encompasses multiple types of omics technologies such as Genomics, Proteomics, Trancriptomics, Metabolomics and Microbiomics that are done at the molecular level to identify the aetiology of diseases and effective drug targets. The results of these experimental and computational studies yield colossal high throughput data which has to be stored, integrated, processed and visualised.