The Cancer Genome Anatomy Projects Genetic Annotation Initiative

生物信息学核心的一个重点是扩展现有显示工具的功能。蛋白质结构查看器有两个组件：一个显示蛋白质整体结构上的氨基酸变化；第二张图显示了三维蛋白质结构上的这些变化。该应用程序已被修改以显示无意义和移码突变，并已与癌症基因组工作台集成。lpimage应用程序（http://lpgimage.nci.nih.gov/LPGimage/）用于显示Jin Jens博士实验室生成的组织微阵列（TMA）数据。Core已经修改了应用程序来显示新的数据：计算机辅助蛋白质表达评分。TMA数据库中的抗体数量已增加到81个。此外，生物信息学核心在caLIMS2的开发中发挥着主导作用，caLIMS2是一个开源的、符合cabig的实验室信息管理系统（http://gforge.nci.nih.gov/projects/calims2/）。caLIMS2将作为信息管理系统和符合cabig的数据存储库和分析工具之间的链接。版本0.5里程碑1发布已经完成。最后，核心为液化石油气实验室及其合作者提供信息学支持。生物信息学核心支持的项目包括肝癌的全基因组关联研究（Buetow实验室），NCI60癌细胞系基因表达谱的鉴定（Buetow和Monks实验室），乳腺癌中tgf - β反应基因的鉴定（Lee和Wakefield实验室），TAF1和TAF7靶点的鉴定（Buetow， Lee和Singer实验室）以及食道癌基因组改变的研究（Lee和Taylor实验室）。

One focus of the Bioinformatics Core has been to expand the functionality of existing display tools. The Protein Structure Viewer has two components: one displays amino acid alterations on the global structure of a protein; the second displays these alterations on three-dimensional protein structures. This application has been modified to display nonsense and frameshift mutations, and has been integrated with the Cancer Genome WorkBench. The LPGImage application (http://lpgimage.nci.nih.gov/LPGimage/) serves to display tissue microarray (TMA) data generated by Dr. Jin Jens laboratory. The Core has modified the application to display new data: computer assisted protein expression scoring. The number of antibodies in the TMA database has been increased to 81. In addition, the Bioinformatics Core is playing a leading role in the development of caLIMS2, a open-source, caBIG-compliant laboratory information management system (http://gforge.nci.nih.gov/projects/calims2/). caLIMS2 will function both as an information management system and a link between caBIG-compliant data repositories and analytical tools. The version 0.5 milestone 1 release has been completed. Finally, the Core provides informatics support to laboratories in the LPG and their collaborators. Projects supported by the Bioinformatics Core include a genomewide association study of liver cancer (Buetow Lab), identification of gene expression profiles in the NCI60 cancer cell lines (Buetow and Monks Labs), the identification of TGF-beta responsive genes in breast cancer (Lee and Wakefield Labs), the identification of TAF1 and TAF7 targets (Buetow, Lee and Singer Labs) and the investigation of genomic alterations in esophageal cancer (Lee and Taylor Labs).