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Every year, a large number of published studies present biomarkers for various neurological disorders. Many of these studies are based on mass spectrometry proteomics data and describe comparison of the abundance of proteins in cerebrospinal fluid between two or more disease groups. As the number of such studies is growing, it is no longer straightforward to obtain an overview of which specific proteins are increased or decreased between the numerous relevant diseases and their many subcategories, or to see the larger picture or trends between related diseases. To alleviate this situation, we therefore mined the literature for mass spectrometry–based proteomics studies including quantitative protein data from cerebrospinal fluid of patients with multiple sclerosis, Alzheimer’s disease, and Parkinson’s disease and organized the extracted data in the Cerebrospinal Fluid Proteome Resource (CSF-PR). CSF-PR is freely available online at http://probe.uib.no/csf-pr, is highly interactive, and allows for easy navigation, visualization, and export of the published scientific data. This chapter will guide the user through some of the most important features of the tool and show examples of the suggested use cases. acceptedVersion more...

The purpose of this thesis is to discuss the feasibility of developing a distributed interactive visual analysis omics system demonstrating how selected modules from the standalone J-Express Modularized application can be converted into a web based distributed system maintaining the original application's interactivity and functionality. A distributed system is considered as the main architectural design, where the client-side will mainly be responsible for managing the interactive visualisation of the generated results, and the server-side is responsible for the remote processing and storage of the data files in addition to sharing the data resources between the users. A prototype system of an interactive visual data analysis of omics data will be implemented as an online service to non-technical life science researchers. This provides the opportunity to address the main challenges and limitations of such systems, as well as outlining the additive benefits to the omics-data analysis process achieved by the use of distributed systems. The main goal for this thesis can thus be summarised as: Investigate the feasibility of developing a web distributed system that supports interactive visualisation of omics data analysis based on converting selected modules from J-Express Modularized, and discuss the main benefits and limitations of such a system. From the study and the prototype evaluation, we conclude that even with the current limitations for the browser memory and computing capabilities, it is still feasible to develop a browser based distributed system for interactive visual analysis of omics data. This system will achieve good performance, scalability, besides being biologist- friendly. Master i Informatikk MAMN-INF INF399 more...