Evolutionary Analysis of Protein using HyperChem

描述（由申请人提供）：在II期结束时，我们将推出一个新的商业产品：HYPERPROTEIN。HYPERPROTEIN将建立在现有的软件平台HYPERCHEM上，HYPERCHEM现在是7.5版的商业版本。HYPERCHEM用于教育和工业，应用分子建模和计算化学分子。通过满足I期提案中给出的目标，以及通过芳香酶家族蛋白质的系统基因组分析，已经在I期阶段确定了将HYPERPROTEIN产品放置在HYPERCHEM平台上的可行性。第二阶段的科学具体目标是扩大我们对系统基因组学工具的理解，以便更好地在产品中放置替代工具。技术特定目标是执行支持这些工具所需的软件工程。教育特定目标将开发手册和教程，描述系统基因组学工具的使用。这将包括一系列工作的例子，说明应用先进的系统基因组分析。HYPERPROTEIN产品通过软件工程出现，将协助实现目标1和目标3，这需要基金会科学家（主要负责目标1和目标3）和HyperCube工作人员（主要负责目标2）之间的合作。

DESCRIPTION (provided by applicant): At the end of Phase II, we will launch a new commercial product: HYPERPROTEIN. HYPERPROTEIN will be built on an existing software platform, HYPERCHEM, now in its commercial Version 7.5. HYPERCHEM is used in both education and industry to apply molecular modeling and computational chemistry to molecules. The feasibility of placing the HYPERPROTEIN product on the HYPERCHEM platform has been established in Phase I, both by meeting the Aims given in the Phase I proposal, and through a phylogenomic analysis of the aromatase family of proteins. The scientific Specific Aim of Phase II is to expand our understanding of phylogenomics tools to better place alternative tools in the product. The technological Specific Aim is to perform the software engineering required to support these tools. The educational Specific Aim will develop manual and tutorial describing the use of phylogenomic tools. This will include a series of worked examples that illustrate the application of advanced phylogenomic analysis. The HYPERPROTEIN product, as it emerges through software engineering, will assist with Aims 1 and 3, requiring collaboration between the Foundation scientists, who will be primarily responsible for Aims 1 and 3, and HyperCube staff, who will be primarily responsible for Aim 2. HYPERPROTEIN will fill a need in the educational software market: today, no educationally oriented product supports chemical, phylogenomic, and structural biological analysis. By expanding the capabilities of HYPERCHEM towards the biomolecular sciences, HYPERPROTEIN is expected to quadruple its subscription base in the educational market, and expand its use in industry. In the future, it should be possible to further enhance the product by joining it to naturally organized protein sequence databases. This should ensure its commercial success as an integrated phylogenomics software package, in both the academic and industrial sectors.