Small BAM files for practising RNA-seq and WES visualization (human)

Two sets of BAM files for teaching RNA-seq and whole exome sequence (WES) visualization. All data was processed from open access SRA datasets. NAME RNA-EMT WES-LUNG SOURCE Yang et al. https://doi.org/10.1128/mcb.00019-16, SRA: PRJNA304419 Ju et al. https://doi.org/10.1101/gr.133645.111; SRA: ERP001071) DESCRIPTION Human RNA-seq BAM files Human WES BAM files: Lung cancer SEQUENCING TYPE Illumina paired-end, stranded Illumina paired-end METHODS Original data are from cell lines subjected to epthithelium-mesenchymal transition. We took replicates corresponding to Day 0 (uninduced cells) and Day 7 (7 days after induction). Reads were aligned with STAR. BAM files are restricted to chromosome 18. Gene of interest: CDH2, up in mesenchymal state. WES were obtained from tumor and blood tissues from a non small cell lung cancer patient. Reads were aligned with BWA. A fraction of sequences corresponding to a panel of genes were retained. Genes of interest: DUSP27, KRAS MAPPED_TO HG19 HG19 SAMPLING RATE 0.50% 0.10% FILE SIZE 2*40Mb 2*7Mb本数据集包含两套BAM文件，用于教学RNA测序（RNA-seq）与全外显子组测序（Whole Exome Sequence, WES）可视化。所有数据均处理自开放获取的序列读取档案（Sequence Read Archive, SRA）数据集。 名称 RNA-EMT WES-LUNG 来源 Yang等，DOI: 10.1128/mcb.00019-16，SRA编号：PRJNA304419 Ju等，DOI: 10.1101/gr.133645.111；SRA编号：ERP001071 描述 人类RNA-seq的BAM文件 人类WES的BAM文件：肺癌相关样本 测序类型 Illumina双端测序，链特异性 Illumina双端测序 实验方法 原始数据取自经历上皮间质转化（Epithelial-Mesenchymal Transition, EMT）的细胞系，选取对应第0天（未诱导细胞）与第7天（诱导后7天）的生物学重复样本。测序读段通过STAR软件进行比对，BAM文件仅限定于18号染色体。目标基因为CDH2，该基因在间质状态下表达上调。 WES数据取自一名非小细胞肺癌患者的肿瘤组织与血液组织，测序读段通过BWA软件进行比对，保留了一组目标基因面板对应的序列片段。目标基因包括DUSP27、KRAS 比对参考基因组 HG19 HG19 采样率 0.50% 0.10% 文件大小 2×40Mb 2×7Mb