Ribotools 工具集发布，联合 Rp-Bp 分析 Ribo-seq 与 RNA-seq 翻译组数据
Rp-Bp and the Ribotools box for translatome profiling
Ribotools 工具集发布，用于分析配对的核糖体印迹测序（Ribo-seq）与 RNA 测序数据，可独立使用，也可与 Rp-Bp 联用，完成 Ribo-seq 质控、开放阅读框发现、翻译效率和差异表达分析。作者用 Ribotools 刻画人诱导多能干细胞（hiPSCs）向心肌细胞分化的过程，观察到细胞从可塑的、信号驱动状态向稳定的、结构定型状态转变，这一转变由多层翻译调控分阶段推进。结合蛋白质组学，该数据集为研究 hiPSC 心脏谱系定向提供了多组学资源。作者还给出了一套可复现、可扩展的流程，用于基准评测翻译效率分析工具。
来源：NAR Genomics and Bioinformatics · doi.org
We present the Ribotools “box” for the analysis of matched ribosome profiling (Ribo-seq) and RNA sequencing data. Ribotools can be used in standalone mode or in combination with Rp-Bp for Ribo-seq quality control, open reading frames discovery, translation efficiency, and differential expression analyses. In this work, we use Ribotools to profile the differentiation of human induced pluripotent stem cells (hiPSCs) into cardiomyocytes to reveal a remarkably coherent transition from plastic, signaling-driven to stable, structurally committed cardiac cells, staged through multiple layers of translational control. Together with complementary proteomics, the resulting dataset provides a rich multi-omics resource for investigating the hiPSC model of cardiac lineage commitment. Additionally, we present a reproducible and extensible pipeline for benchmarking translation efficiency analysis tools. Ribotools and Rp-Bp are available on Bioconda and help to make research accessible and reproducible. Detailed documentation, test datasets, and tutorials are available at https://ribotools.readthedocs.io and https://rp-bp.readthedocs.io.