ArticleAdvanced science (Weinheim, Baden-Wurttemberg, Germany)2025
RiboMicrobe: An Integrated Translatome Atlas for Microorganism.
Article in Advanced science (Weinheim, Baden-Wurttemberg, Germany), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
2 citing papers in PubMed.
- The genetic code at the balance point of error and demand.PLoS computational biology · 2026Article
- RiboMicrobe: An Integrated Translatome Atlas for Microorganism.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
13 authors.
Funding
Abstract
Ribosome profiling (Ribo-seq) represents a significant advance in translatomics research. This technique enables the precise measurement of global and in vivo translation dynamics, the quantification of translation, and the identification of active translated small open reading frames (sORFs). While several databases have been developed to focus on the translatome, comprehensive databases dedicated specifically to analyses of translation and sORFs in prokaryotes remain scarce. Therefore, RiboMicrobe (https://rnainformatics.org.cn/RiboMicrobe/ and https://rnainformatics.cn/RiboMicrobe/) develops a comprehensive database tailored for Ribo-seq data from prokaryotic microorganisms, Accompanying this database, it also introduces two novel sORF prediction models based on transformer-based deep learning architecture, sORFPredRibo and sORFPred, to support translatomics analyses and sORF annotation. Currently, RiboMicrobe encompasses 891 Ribo-seq, 369 matched RNA-seq, and 62 proteome datasets from 36 prokaryotes and 2 viruses, and provides users with intuitive web interfaces to easily access and explore information of interest. In addition, a suite of bioinformatics tools encompassing three functional categories: visualization tools (Browse, JBrowse, and mRNABrowse) is developed for data exploration; predictive algorithms (sORFPred and sORFPredRibo) for sORFs prediction; and comparative analysis utilities (DiffTE, DiffCO, and BLAST) for functional investigations. It is believed that the diverse data and capabilities of RiboMicrobe will advance the field of microbial translational research substantially.
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What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.