Evolutionary Analysis of Protein using HyperChem

描述（由申请人提供）：在II期结束时，我们将推出一种新的商业产品：高蛋白。HYPERPROTEIN将在现有软件平台HYPERCHEM（目前为商业版本7.5）上构建。HYPERCHEM用于教育和工业，将分子建模和计算化学应用于分子。在第I阶段，通过满足第I阶段提案中给出的目标，并通过对芳香酶家族蛋白质的基因组学分析，确定了将HYPERPROTEIN产品置于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基因组学工具的理解，以便更好地在产品中使用替代工具。技术的具体目标是执行支持这些工具所需的软件工程。教育的具体目标将制定手册和教程描述使用的基因组工具。这将包括一系列工作的例子，说明先进的基因组分析的应用。HyperPROTEIN产品通过软件工程出现，将有助于实现目标1和目标3，需要基金会科学家（主要负责目标1和目标3）与HyperCube工作人员（主要负责目标2）之间的合作。 HYPERPROTEIN将满足教育软件市场的需求：今天，没有面向教育的产品支持化学，生物基因组和结构生物学分析。通过扩大HYPERCHEM对生物分子科学的能力，HYPERPROTEIN预计将在教育市场的订阅基础翻两番，并扩大其在工业中的使用。将来，通过将其加入自然组织的蛋白质序列数据库，应该可以进一步增强该产品。这将确保其作为一个综合的生物基因组学软件包在学术和工业部门取得商业成功。

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.