Ebbert Lab Nanopore PCS111 brain cDNA discovery (12 samples - AD vs Controls)

For more information about this data see the publication: https://doi.org/10.1038/s41587-024-02245-9 The publication GitHub is a good source of information: https://github.com/UK-SBCoA-EbbertLab/brain_cDNA_discovery There are also README files in the data that provide more information about what is contained in each directory. Basic information about main directory structure and files: reproducing_RNA_figures - Contains all references/annotations necessary for reproducing the stats, analysis, and figures for the RNA isoform analysis in the article. reproducing_nextflow_pipeline - Contains all references/annotations necessary for reproducing the NextFlow pipeline. proteomics - Fasta reference files files used for proteomics analysis with FragPipe and results output by FragPipe. transcriptomic_analysis_output - Contains output from transcriptomic analysis including: quality control, counts matrices, new RNA isoform annotations, and the Bambu R object. counts_transcript.txt - Transcript level counts (does not include any intronic reads).如需了解该数据集的更多详情，请参阅以下发表文献：https://doi.org/10.1038/s41587-024-02245-9 该文献对应的GitHub仓库亦是优质信息来源：https://github.com/UK-SBCoA-EbbertLab/brain_cDNA_discovery 数据集内附带README文件，可用于了解各目录包含的具体内容。 主目录结构与文件基础信息如下： reproducing_RNA_figures：包含复现本文中RNA异构体分析所需的统计、分析及图表的全部参考资料与注释文件。 reproducing_nextflow_pipeline：包含复现NextFlow流程所需的全部参考资料与注释文件。 proteomics：包含用于FragPipe蛋白质组学分析的FASTA参考文件，以及FragPipe生成的分析结果文件。 transcriptomic_analysis_output：包含转录组学分析的输出结果，具体包括：质量控制文件、计数矩阵、新型RNA异构体注释文件，以及Bambu R对象。 counts_transcript.txt：转录本水平计数文件（不含任何比对至内含子区域的测序读段）。