MicroRNA databases | Non-coding transcript data analysis
MicroRNAs (miRNAs) are small non-coding RNA (∼22 nt) involved in the post-transcriptional regulation of gene expression. miRNAs promote the degradation or inhibit the expression of messenger RNA by binding to specific sequences generally located in the 3′ UTR of their target.
Permits users to identify and annotate long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs), and to predict the functions of lncRNAs. deepBase is a database that facilitates the display and the annotation and discovery of small RNAs (sRNAs), lncRNAs and circRNAs. It also provides expression and evolution profiles of lncRNAs, circRNAs and small RNAs. Two web-based tools, lncSeeker and lncFunction, can be used to identify high-confidence lncRNAs, and to predict lncRNA functions.
A resource devoted to the identification and analysis of mixed MicroRNA/Transcription Factor Regulatory Circuits in the Human and Mouse genomes. The resulting integrated network can be the starting point for a deeper understanding of their system-level properties and provides candidates for experimental validation.
Focuses in post-transcriptional regulation which integrates information related to binding site data between RNA binding proteins (RBPs) and microRNAs. To enable the inclusion of doRiNA into third-party analysis pipelines, all operations are accessible via a REST API. Alternatively, local installations can be queried using a Python API.
A database of miRNA expression profile data across different tissues and cell lines. mimiRNA incorporates a sample classification algorithm, ExParser, that groups identical miRNA or mRNA experiments from separate sources. This enables mimiRNA to provide reliable expression profiles and to discover functional relations between miRNAs and mRNAs such as miRNA targets.
A database that curated and collected experimentally supported miRNA, one class of newly identified genetic factors, and environmental factor interplays and their associated phenotypes. miREnvironment integrated more than 3857 entries, 1242 miRNAs, 394 environmental factors, 305 phenotypes, 24 species from 557 publications. Information such as conditions of environmental factors, samples treated by environmental factors, species, detailed evidences of the experiments and references are also given.
A repository that describes the patterns of miRNA expression in various human sarcoma types. S-MED provides both Basic and Advanced data search options for exploration of the data in heatmap and text formats. The database also provides statistical details such as fold changes and p-values for differentially expressed miRNAs in each sarcoma and normal tissue type.
A collection of human SNPs in predicted miRNA target sites. MirSNP could identify the putative miRNA-related SNPs from GWAS and eQTLs researches and provide the direction for subsequent functional researches.