Version: m7GHub V2.0 Data Release – July, 2023
We have upgraded m7GHub (Bioinformatics, 2020) to version 2.0, an updated resource for a comprehensive collection of m7G modifications in various types of RNAs across multiple species. The four main components presented in the first release have all been expanded: an m7GDB database containing 430,898 putative m7G sites identified in 23 species, collected from both widely applied next-generation sequencing (NGS) and the emerging Oxford Nanopore direct RNA sequencing (ONT) techniques; an m7GDiseaseDB hosting 156,206 m7G-associated variants (involving addition or removal of an m7G site), including 3,238 disease-relevant m7G-SNPs that may function through epitranscriptome disturbance; and two enhanced analysis modules to perform interactive analyses on the collections of m7G sites (m7GFinder) and functional variants (m7GSNPer). We expect that m7Ghub v2.0 should serve as a valuable centralized resource for studying m7G modification.
| Species |
Ref-Annotations |
Technology |
| Homo sapiens |
hg38 |
5 [m7G-seq, m7G-MaP, m7G-MeRIP-seq, m7G-miCLIP-seq, Oxford Nanopore direct RNA sequencing/ELIGOS & Tombo] |
| Mus musculus |
mm10 |
3 [m7G-MeRIP-seq, m7G-miCLIP-seq, Oxford Nanopore direct RNA sequencing/ELIGOS & Tombo] |
| Rattus norvegicus |
rn6 |
1 [m7G-MeRIP-seq] |
| Danio rerio |
danRer10 |
1 [m7G-MeRIP-seq] |
| Arabidopsis thaliana |
TAIR10.1 |
Oxford Nanopore direct RNA sequencing/ELIGOS |
| Bipolaris sorokiniana |
Cocsa1 |
Oxford Nanopore direct RNA sequencing/ELIGOS & Tombo |
| Bulinus truncatus |
Btru.v1 |
Oxford Nanopore direct RNA sequencing/ELIGOS |
| Candida nivariensis |
JHU_Cniv_v1 |
Oxford Nanopore direct RNA sequencing/ELIGOS |
| Cucumis melo |
ASM31304v1 |
Oxford Nanopore direct RNA sequencing/ELIGOS |
| Drosophila melanogaster |
Release_6_plus_ISO1_MT |
Oxford Nanopore direct RNA sequencing/ELIGOS |
| Escherichia coli |
ASM584v2 |
Oxford Nanopore direct RNA sequencing/ELIGOS & Tombo |
| Haloferax volcanii |
ASM2568v1 |
Oxford Nanopore direct RNA sequencing/ELIGOS & Tombo |
| Helianthus annuus |
HanXRQr2.0-SUNRISE |
Oxford Nanopore direct RNA sequencing/ELIGOS |
| Influenza A virus |
ViralMultiSegProj15622 |
Oxford Nanopore direct RNA sequencing/ELIGOS |
| Penaeus monodon |
NSTDA_Pmon_1 |
Oxford Nanopore direct RNA sequencing/ELIGOS |
| Phyllostachys edulis |
ASM1103853v1 |
Oxford Nanopore direct RNA sequencing/ELIGOS |
| Physcomitrium patens |
Phypa_V3 |
Oxford Nanopore direct RNA sequencing/ELIGOS |
| Populus trichocarpa |
Pop_tri_v3 |
Oxford Nanopore direct RNA sequencing/ELIGOS & Tombo |
| Pyrococcus furiosus |
ASM824508v1 |
Oxford Nanopore direct RNA sequencing/ELIGOS & Tombo |
| Saccharomyces cerevisiae |
R64 |
Oxford Nanopore direct RNA sequencing/ELIGOS |
| Sus scrofa |
Sscrofa11.1 |
Oxford Nanopore direct RNA sequencing/ELIGOS |
| Toxoplasma Gondii |
TGA4 |
Oxford Nanopore direct RNA sequencing/ELIGOS |
| Zea mays |
Zm-B73-REFERENCE-NAM-5.0 |
Oxford Nanopore direct RNA sequencing/ELIGOS |