CIF:Small:Next Generation DNA Sequencing: Signal Processing Perspectives

通过DNA测序推断出的个人基因组成将有助于确定个人对各种慢性和急性疾病或病症的易感性，使新药品的发现和临床试验成为可能，并普遍个性化和改善医疗保健的提供。在个性化医疗的承诺收益实现之前，DNA测序技术必须变得快速、经济和可靠。常规测序技术的高成本和劳动密集型性质使其不适合常规测序任务。最近开发的合成测序是一种新的高通量技术，解决了这些障碍-目前，它实现了两个数量级的成本降低相比，传统的方法。然而，合成测序的保真度和序列读取长度不如那些昂贵的传统技术，其整体性能是不够的，为大多数医学研究，本研究的目标是开发信号处理技术，使准确和可靠的DNA序列检测合成测序系统。研究者的具体目标是：（1）开发合成测序过程的数学模型，并推导出推断此类模型参数的技术。(2)在合成测序系统中设计计算效率高的最佳DNA序列检测算法。(3)用实验数据验证了理论结果。所概述的工作的结果预计将对高性能的负担得起的DNA测序的开发和应用产生重大影响。

An individual's genetic makeup, inferred by means of DNA sequencing, will help determine the individual's susceptibility to a broad range of chronic and acute diseases or disorders, enable the discovery and clinical testing of new pharmaceutical products, and generally personalize and improve the delivery of health care. Before the promised benefits of personalized medicine come to fruition, DNA sequencing technology must become fast, affordable, and reliable. High cost and labor intensive nature of conventional sequencing technology render it unfit for routine sequencing tasks. Recently developed sequencing-by-synthesis is a novel high-throughput technique addressing these obstacles -- currently, it achieves a cost reduction of two orders of magnitude as compared to the conventional method. However, fidelity and sequence read-lengths of sequencing-by-synthesis are inferior to those of the costly conventional technology, and its overall performance is insufficient for most medical studies.The goal of this research is to develop signal processing techniques which enable accurate and reliable DNA sequence detection in sequencing-by-synthesis systems. The investigator specifically aims to: (1) Develop mathematical models of sequencing-by-synthesis process and derive techniques for inferring parameters of such models. (2) Design computationally efficient algorithms for optimal DNA sequence detection in sequencing-by-synthesis systems. (3) Validate the obtained theoretical results on experimental data. The results of the outlined work are expected to have a major impact on the development and applications of high-performance affordable DNA sequencing.