Supplementary Data - Nanopore cDNA With and Without mtDNA

Update (v1.4.0-Chimeric): added example chimeric reads, one formed [presumably] during sample prep ["conjugation"], another formed in-silico ["double read"] Update (v1.3.0-DESeq2): added count table and metadata file for DESeq2 analysis Update (v1.2.1-10k): added 10k of FASTQ reads from a more recent run (part of the same differential expression project). Supplementary data to go with David Eccles' poster about nanopore cDNA sequencing with and without mitochondrial DNA. Reference mouse mtDNA and mtDNA reads from 4T1 cells (from MinION cDNA sequencing, and from SRA run SRR6747859). fwd_4T1_BC06.correctedReads.uniqueOnly.fasta.gz -- Canu-corrected cDNA reads from Wildtype 4T1 strain, filtered as transcript-forward orientation rev_4T1_BC06.correctedReads.uniqueOnly.fasta.gz -- Canu-corrected cDNA reads from Wildtype 4T1 strain, filtered as transcript-reverse orientation fwd_4T1_BC07.correctedReads.uniqueOnly.fasta.gz -- Canu-corrected cDNA reads from 4T1ρ0 strain (no mitochondrial DNA), filtered as transcript-forward orientation rev_4T1_BC07.correctedReads.uniqueOnly.fasta.gz -- Canu-corrected cDNA reads from 4T1ρ0 strain (no mitochondrial DNA), filtered as transcript-reverse orientation Other intermediate data files are also included, see `4way_mapping_process.txt` for more details. The mpileup differential coverage script can be found here.版本更新（v1.4.0-Chimeric）：新增嵌合读段（chimeric reads）示例，其中一条推测为样本制备过程中通过“接合”（conjugation）产生，另一条为计算机模拟生成（in silico）的“双读段”（double read）。 版本更新（v1.3.0-DESeq2）：新增用于DESeq2差异表达分析的计数表与元数据文件。 版本更新（v1.2.1-10k）：新增来自最新测序批次的1万条FASTQ读段，该批次属于同一差异表达项目的一部分。 本数据集为David Eccles关于有无线粒体DNA（mitochondrial DNA, mtDNA）的纳米孔互补DNA（complementary DNA, cDNA）测序研究的海报配套补充数据，包含小鼠线粒体DNA参考序列，以及来自4T1细胞的线粒体DNA读段，相关数据来源于MinION cDNA测序，以及序列读取档案（Sequence Read Archive, SRA）登录号SRR6747859的测序结果。 各数据文件详情如下： `fwd_4T1_BC06.correctedReads.uniqueOnly.fasta.gz`：野生型4T1菌株的Canu校正互补DNA读段，经筛选仅保留转录本正向取向的序列 `rev_4T1_BC06.correctedReads.uniqueOnly.fasta.gz`：野生型4T1菌株的Canu校正互补DNA读段，经筛选仅保留转录本反向取向的序列 `fwd_4T1_BC07.correctedReads.uniqueOnly.fasta.gz`：4T1ρ0菌株（无线粒体DNA）的Canu校正互补DNA读段，经筛选仅保留转录本正向取向的序列 `rev_4T1_BC07.correctedReads.uniqueOnly.fasta.gz`：4T1ρ0菌株（无线粒体DNA）的Canu校正互补DNA读段，经筛选仅保留转录本反向取向的序列 本数据集同时包含其他中间数据文件，详细说明请参阅`4way_mapping_process.txt`。 mpileup差异覆盖度分析脚本可在此处获取。