Development of KBCommons : universal informatics framework for multi-omics translational research

Dr. Trupti Joshi, Advisor. ; Field of study: Computer science. ; Includes vita. ; "December 2017." ; Multi-level 'OMICS' data integration for multiple organisms has been one of the major challenges in the era of advanced next generation sequencing and high performance technologies. Biological data has been producing tremendously fast with the availability of these high throughput sequencing technologies at low price and high speed. However, these data are often stored individually across different web resources based on data type and organism, making it difficult to find and integrate them. There are many websites available which store data from different data types and display that data in pie charts or plain text format but limit their data to only one fixed organism. These web-based multi-omics analysis is an efficient and easy way of analyzing the data but it would be difficult for other researchers working with other organisms and with complex data. The complex multi-omics data requires extensive data management, exhaustive computational analysis, and effective integration to have a one-stop interactive, web-based portal to browse, access, analyze, integrate and share knowledge about genomics and molecular mechanisms, with ultimate links to phenotypes and traits for many different organisms. To achieve this, we have developed Knowledge Base Commons (KBCommons), a platform that automates the process of establishing the database and making the tools available for organisms via a dedicated web resource. KBCommons is currently supporting four different categories including Plants and Crops; Animals and Pets; Humans and Diseases; Microbes and Viruses. It has four main functionalities including Browse KBCommons, Contribute to KB, Add version to KB, and Create a new KB. Using KBCommons, researchers from different groups with different organisms' data can be shared and accessed among all. KBCommons is an automatic framework which uses famous and widely used Laravel PHP framework. This is very efficient to deal with ...