A comprehensive genomic and transcriptomic dataset of triple-negative breast cancers

Molecular subtyping of triple-negative breast cancer (TNBC) is essential for understanding the mechanisms and discovering actionable targets of this highly heterogeneous type of breast cancer. We previously performed a large single-center and multiomics study consisting of genomics, transcriptomics, and clinical information from 465 patients with primary TNBC. To facilitate reusing this unique dataset, we provided a detailed description of the dataset with special attention to data quality in this study. The multiomics data were generally of high quality, but a few sequencing data had quality issues and should be noted in subsequent data reuse. Furthermore, we reconduct data analyses with updated pipelines and the updated version of the human reference genome from hg19 to hg38. The updated profiles were in good concordance with those previously published in terms of gene quantification, variant calling, and copy number alteration. Additionally, we developed a user-friendly web-based database for convenient access and interactive exploration of the dataset. Our work will facilitate reusing the dataset, maximize the values of data and further accelerate cancer research.

三阴性乳腺癌（triple-negative breast cancer, TNBC）的分子分型，对于解析该高度异质性乳腺癌的发病机制、发掘可靶向治疗靶点至关重要。我们此前开展了一项大型单中心多组学研究，纳入了465例原发性三阴性乳腺癌患者的基因组学、转录组学及临床信息数据。为便于该独特数据集的复用，本研究对其进行了详细阐述，并重点关注了数据质量问题。该多组学数据整体质量良好，但少量测序数据存在质量问题，后续复用数据时需予以注意。此外，我们采用更新后的分析流程，并将人类参考基因组版本从hg19升级至hg38，重新开展了数据分析。在基因定量、变异检出及拷贝数变异分析方面，更新后的分析结果与此前发表的结果具有良好的一致性。此外，我们还搭建了一款用户友好的网页端数据库，以实现数据集的便捷访问与交互式探索。本研究将助力该数据集的复用，最大化发挥数据价值，进一步推动癌症研究的进展。