Source 1primary paper2026MED
Toolkit/RMPore
RMPore
Taxonomy: Technique Branch / Method. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
We developed RMPore (https://rmpore.renlab.cn/), a comprehensive database of single-molecule RNA modifications detected from 958 DRS samples across 34 species.
Usefulness & Problems
No literature-backed usefulness or problem-fit explainer has been materialized for this record yet.
Published Workflows
Objective: Build a comprehensive database of single-molecule RNA modifications from nanopore direct RNA sequencing data and support downstream analysis of modification characteristics and regulatory relationships.
Why it works: The abstract states that nanopore DRS enables transcriptome-wide profiling of native RNA with full-length coverage and single-molecule resolution, and that RMPore combines outputs from 20 detection tools with reproducibility-based confidence categorization.
single-molecule RNA modification detection in native RNAanalysis of correlated modification sitesanalysis of haplotype-biased modification sitesannotation of relationships between modification sites and splicing, RNA-binding protein interactions, RNA-RNA interactions, and circular RNAsnanopore direct RNA sequencingintegration of multiple detection toolsconfidence categorization using prediction thresholds and reproducibility
Stages
- 1.Integrated detection across DRS samples(broad_screen)
This stage generates the initial set of detected RNA modification sites from nanopore DRS data for database construction.
Selection: integration of 20 detection tools applied to nanopore DRS data to detect RNA modification sites
- 2.Confidence categorization of detected sites(decision_gate)
This stage assigns high, medium, and low confidence levels to organize detected sites by supporting evidence strength.
Selection: prediction thresholds and reproducibility of tools, datasets, and other technologies
- 3.Single-molecule advanced analyses(secondary_characterization)
This stage further investigates characteristics of modification sites and regulatory relationships among different modification types.
Selection: analysis of detected modification sites for correlated sites and haplotype-biased sites
- 4.Molecular event annotation integration(functional_characterization)
This stage adds molecular event context to modification sites within the database.
Selection: association of modification sites with splicing events, RNA-binding protein interactions, RNA-RNA interactions, and circular RNAs
Taxonomy & Function
Primary hierarchy
Technique Branch
Method: A concrete computational method used to design, rank, or analyze an engineered system.
Mechanisms
No mechanism tags yet.
Target processes
No target processes tagged yet.
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Ranked Claims
The RMPore analytical pipeline integrates 20 detection tools and identifies 65025784 modification sites spanning 25 modification types, with sites categorized into high, medium, and low confidence levels based on prediction thresholds and reproducibility of tools, datasets, and other technologies.
We constructed a practical analytical pipeline integrating 20 detection tools and categorized all detected sites into three confidence levels (high, medium, and low) based on the prediction thresholds and reproducibility of tools, datasets, and other technologies, identifying a total of 65 025 784 modification sites spanning 25 modification types.
confidence level count 3integrated detection tool count 20modification site count 65025784modification type count 25
RMPore incorporates molecular event annotations for modification sites including splicing events, RNA-binding protein interactions, RNA-RNA interactions, and circular RNAs.
Meanwhile, we also incorporated extensive molecular event annotations of modification sites in RMPore, including splicing events, RNA-binding protein interactions, RNA-RNA interactions, and circular RNAs.
RMPore is a comprehensive database of single-molecule RNA modifications detected from 958 nanopore direct RNA sequencing samples across 34 species.
We developed RMPore (https://rmpore.renlab.cn/), a comprehensive database of single-molecule RNA modifications detected from 958 DRS samples across 34 species.
DRS sample count 958species count 34
Approval Evidence
1 source3 linked approval claimsfirst-pass slug rmpore
We developed RMPore (https://rmpore.renlab.cn/), a comprehensive database of single-molecule RNA modifications detected from 958 DRS samples across 34 species.
Source:
pipeline outputsupports
The RMPore analytical pipeline integrates 20 detection tools and identifies 65025784 modification sites spanning 25 modification types, with sites categorized into high, medium, and low confidence levels based on prediction thresholds and reproducibility of tools, datasets, and other technologies.
We constructed a practical analytical pipeline integrating 20 detection tools and categorized all detected sites into three confidence levels (high, medium, and low) based on the prediction thresholds and reproducibility of tools, datasets, and other technologies, identifying a total of 65 025 784 modification sites spanning 25 modification types.
Source:
resource annotation scopesupports
RMPore incorporates molecular event annotations for modification sites including splicing events, RNA-binding protein interactions, RNA-RNA interactions, and circular RNAs.
Meanwhile, we also incorporated extensive molecular event annotations of modification sites in RMPore, including splicing events, RNA-binding protein interactions, RNA-RNA interactions, and circular RNAs.
Source:
resource descriptionsupports
RMPore is a comprehensive database of single-molecule RNA modifications detected from 958 nanopore direct RNA sequencing samples across 34 species.
We developed RMPore (https://rmpore.renlab.cn/), a comprehensive database of single-molecule RNA modifications detected from 958 DRS samples across 34 species.
Source:
Comparisons
No literature-backed comparison notes have been materialized for this record yet.
Ranked Citations
- 1.