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Avinash Kewalramani presents research at BioComp ’07Avinash Kewalramani (B-6) attended the BioComp ’07 conference to present “Automated High Throughput Microbial Genome Finishing”, conducted under the guidance of Tom Brettin (B-6). Cliff Han (B-6) chaired the Gene Identification and Clustering session. BioComp is part of the World Congress in Computer Science, Computer Engineering, and Applied Computing (World Comp), which is the largest annual gathering of researchers in these three fields. Kewalramani’s presentation covered various methods of incorporating data from two leading methods of genome sequencing (454 and Sanger) for the most comprehensive overall result. Until recently, most sequencing has been done using Sanger sequencing, which is a capillary sequencing method that requires cloning DNA. While this method has proven to be accurate and dependable, it is slow, labor intensive, and costly. As a result, when the new, cheaper, and faster 454 sequencing technology (which uses a method called pyro sequencing) became available, it appeared to be a significant step towards more efficient and cost effective sequencing. However, the 454 data tend to have errors primarily associated with homopolymeric sites in the DNA. Therefore Kewalramani and his team developed a method to assign a phrap score to a base ¾ this is a quality score that is assigned to bases sequenced by the Sanger method. Developing a reliable way to assign a phrap score to 454 data enables smooth integration of this data with the Sanger data. This allows researchers to limit the number of times DNA needs to be cloned and run through the Sanger machine, ultimately resulting in a new, high-quality, faster, more automated, and less expensive method of genome sequencing. |
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