Tong Wei Lue, Tu Yaping N, Samy Mohammad D, Sexton Wade J, Blanck George
a Department of Molecular Medicine , Morsani College of Medicine, University of South Florida , Tampa , FL , USA.
b Department of Genitourinary Oncology , H. Lee Moffitt Cancer Center and Research Institute , Tampa , FL , USA.
Hum Vaccin Immunother. 2017 Mar 4;13(3):501-506. doi: 10.1080/21645515.2016.1246095. Epub 2017 Jan 13.
It has recently become apparent that it is possible to characterize productively recombined, T-cell receptor (TcR) gene segments in tumor exome files, which presumably include representations of the DNA of other cells in the microenvironment. Similar characterizations have been done for TcR recombinations in tumor specimen RNASeq files. While exome files have been used to characterize immunoglobulin gene segment recombinations for tumors closely related to B-cells, immunoglobulin recombinations have yet to be characterized for putative microenvironment cells for solid tumors. Here we report a novel scripted algorithm that detects productive and unproductive immunoglobulin recombinations in both B-cell related tumor exome files and in solid tumor exome files, with the most important result being the relatively high level B-cell infiltrate in breast cancer. This analysis has the potential of streamlining and dramatically augmenting the knowledge base regarding B-cell infiltrates into solid tumors; and leading to antibody reagents directed against tumor antigens and tissue resident, infectious pathogens.
最近有证据表明，在肿瘤外显子组文件中可以对有效重组的T细胞受体（TcR）基因片段进行特征描述，这些文件可能包含微环境中其他细胞DNA的表征。对于肿瘤标本RNA序列文件中的TcR重组也进行了类似的特征描述。虽然外显子组文件已被用于表征与B细胞密切相关肿瘤的免疫球蛋白基因片段重组，但尚未对实体瘤假定微环境细胞的免疫球蛋白重组进行特征描述。在此，我们报告一种新型脚本算法，该算法可检测B细胞相关肿瘤外显子组文件和实体瘤外显子组文件中的有效和无效免疫球蛋白重组，最重要的结果是乳腺癌中相对高水平的B细胞浸润。该分析有可能简化并大幅扩充关于B细胞浸润实体瘤的知识库；并产生针对肿瘤抗原以及组织驻留性感染性病原体的抗体试剂。
