Translatome
About Translatome Module
The translatome module characterizes the translation landscape using Ribo-seq data. POSTAR3 returns a summary frame, with histogram showing number of different types of ORF, and a heatmap showing density in different conditions. Tables contain ORF of different types, and each ORF could be linked to their density, translation efficiency(TE), identified translation region, and ribosome profiling signal.
Tips:
Search Translatome Module by selecting species and entering RNA name.
Species:
RNA name:
References:
1. RiboWave: Xu Z, Hu L, Shi B, et al. Ribosome elongating footprints denoised by wavelet transform comprehensively characterize dynamic cellular translation events. Nucleic Acids Res.
2018;46(18):e109.
2. RiboCode: Xiao Z, Huang R, Xing X, Chen Y, Deng H, Yang X. De novo annotation and characterization of the translatome with ribosome profiling data. Nucleic Acids Res. 2018;46(10):e61.
3. RiboTaper: Calviello L, Mukherjee N, Wyler E, et al. Detecting actively translated open reading frames in ribosome profiling data. Nat Methods. 2016;13(2):165-170.
4. ORFscore: Bazzini AA, Johnstone TG, Christiano R, et al. Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation. EMBO J.
2014;33(9):981-993.
5. RibORF: Ji Z, Song R, Regev A, Struhl K. Many lncRNAs, 5'UTRs, and pseudogenes are translated and some are likely to express functional proteins. Elife.
2015;4:e08890.