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Lavanya Ramakrishnan, Lawrence Berkeley National Lab, outlines its science requirements in the use of Hadoop and related technologies, such as HBASE. She presents a performance comparison of a bioinformatics application using Hadoop on commercial cloud platforms such as Amazon EC2, Yahoo! M45 with a high performance computing system. She present experiences and performance results from local Hadoop and HBASE installation with different file system and scheduling configurations specifically suited for scientific applications.