Welcome to Pol3Base !
Pol3Base is the first open database developed for exploring the interactome, expression, evolution, epitranscriptome and disease variations of RNA Pol III-transcribed ncRNAs.
The current release of Pol3Base includes thousands of regulatory relationships between ~79,000 ncRNAs and transcription factors by mining 56 ChIP-seq datasets. By integrating CLIP-seq datasets, we deciphered the interactions of these ncRNAs with more than 240 RNA binding proteins. Moreover, Pol3Base contains ~9,700 RNA modifications located within thousands of Pol III-transcribed ncRNAs. Importantly, we characterized expression profiles of ncRNAs in more than 70 tissues and 28 different tumor types. In addition, by comparing these ncRNAs from human and mouse, we revealed about 4,000 evolutionary conserved ncRNAs. We also identified ~11,403 tRNA-derived small RNAs (tsRNAs) in 32 different tumor types. Finally, by analyzing somatic mutation data, we investigated the mutation map of these ncRNAs to help uncover their potential roles in diverse diseases.
Overall, this database will help expand our understanding of potential functions and regulatory networks of Pol III-transcribed ncRNAs.
Release notes
Release version 1.0.0
- Datasets:
- Species: Human, Mouse
- Samples: 56
- Technologies: ChIP-seq, CLIP-seq, RNA-seq, sRNA-seq
- Functions:
- * Regulatory network of Pol III-generated ncRNAs with 11 transcription factors (TFs)
- * The global map of RNA modifications with 40 types in Pol III-generated ncRNAs
- * Regulatory relationships between Pol III-transcribed ncRNAs and 212 RBPs
- * The global identification of tsRNAs that produced by the degradation of Pol III-derived tRNAs in 32 tumors
- * Expression profiles of Pol III-derived ncRNAs in 75 cells/tissues and 28 cancers
- * The map of mutation residues on Pol III-transcribed ncRNAs in 29 diseases/cancers
- * Conserved consensus sequence of Pol III-transcribed ncRNAs
- * Evolutionary conservation of Pol III-transcribed ncRNAs between different mammals
Statistics of Pol III transcribed ncRNA types
The source of genomes and annotation sets used in Pol3Base
| Species | Gnome build | Genome sequence | Genome annotation |
|---|---|---|---|
| Human | hg38 | UCSC | GENCODE v30 |
| Mouse | mm10 | UCSC | GENCODE vM23 |
Pol3Base: A resource for decoding the interactome, expression, evolution, epitranscriptome and disease variations of Pol III-transcribed ncRNAs. Li Cai, Jia-jia Xuan, Jian-Hua Yang*. Nucleic Acids Res. 2021.
Pol3Base is under constant maintenance and improvement. Don't hesitate to tell us (mail) your questions about the usage, comments or suggestions.
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