RPFdb is a public resource for hosting, analyzing and visualizing ribosome profiling (Ribo-seq) data. The latest version, RPFdb v2.0 beta (20200101), contains Ribo-seq data from 3,603 samples and matched RNA-seq data from 1,962 samples comprising 372 studies covering 33 different species, processed by a unified pipeline. There are two ways to query the database: by keywords of studies or by genes. The outputs are presented in three levels. 1) Study level: including meta information of studies and reprocessed data for gene expression of translated mRNAs; 2) Sample level: including global perspective of translated mRNA and a list of the most translated mRNA of each sample from a study; 3) Gene level: including normalized sequence counts of translated mRNA on different genomic location of a gene from multiple samples and studies. To explore the rich information provided by RPF, RPFdb also provides a genome browser to query and visualize context-specific translated mRNA. In addition to providing quantitative information and intuitive visualization-oriented information about gene translation, RPFdb v2.0 beta also provides annotation information and translational efficiency (TE) about actively translated open reading frames(ORFs).
Get RPFdb data
Downloads for the latest version (currently: V2.0 beta) of the datasets
[2022-01-01] RPFdb Version 2 beta.
[2018-06-01] RPFdb Version 2.
[2015-07-04] RPFdb Version 1.