ArticleDatabase : the journal of biological databases and curation2016
NPInter v3.0: an upgraded database of noncoding RNA-associated interactions.
Article in Database : the journal of biological databases and curation, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 72 papers.
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Who cites it
72 citing papers in PubMed, 151 citations in OpenAlex.
- miRNA-lncRNA Cross-Regulation Landscape in Cancer: From Molecular Mechanisms to Therapeutic and Diagnostic Applications.Cancers · 2026Review
- Graph-RPI: predicting RNA-protein interactions via graph autoencoder and self-supervised learning strategies.Briefings in bioinformatics · 2025Article
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- Predicting lncRNA-protein interactions using a hybrid deep learning model with dinucleotide-codon fusion feature encoding.BMC genomics · 2024Article
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- Predicting lncRNA-protein interactions through deep learning framework employing multiple features and random forest algorithm.BMC bioinformatics · 2024Article
- Prediction of lncRNA functions using deep neural networks based on multiple networks.BMC genomics · 2023Article
- Copy number variation-associated lncRNAs may contribute to the etiologies of congenital heart disease.Communications biology · 2023Article
- NPInter v5.0: ncRNA interaction database in a new era.Nucleic acids research · 2023Article
- Circular RNAs in hepatocellular carcinoma: biogenesis, function, and pathology.Frontiers in genetics · 2023Review
- Predicting lncRNA-protein interactions with bipartite graph embedding and deep graph neural networks.Frontiers in genetics · 2023Article
- SGII: Systematic Identification of Essential lncRNAs in Mouse and Human Genome With lncRNA-Protein-Protein Heterogeneous Interaction Network.Frontiers in genetics · 2022Article
- miRSM: an R package to infer and analyse miRNA sponge modules in heterogeneous data.RNA biology · 2021Article
- Article
- Noncoding RNA crosstalk in brain health and diseases.Neurochemistry international · 2021Review
- A machine learning framework that integrates multi-omics data predicts cancer-related LncRNAs.BMC bioinformatics · 2021Article
- Decoding LncRNAs.Cancers · 2021Review
- Vitamin D receptor upregulates lncRNA TOPORS-AS1 which inhibits the Wnt/β-catenin pathway and associates with favorable prognosis of ovarian cancer.Scientific reports · 2021Article
- DeepLPI: a multimodal deep learning method for predicting the interactions between lncRNAs and protein isoforms.BMC bioinformatics · 2021Article
- Long non-coding RNA FAM83H-AS1 acts as a potential oncogenic driver in human ovarian cancer.Journal of ovarian research · 2021Article
12 more citing papers are in PubMed but not listed here.
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Authors and funding
7 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Despite the fact that a large quantity of noncoding RNAs (ncRNAs) have been identified, their functions remain unclear. To enable researchers to have a better understanding of ncRNAs' functions, we updated the NPInter database to version 3.0, which contains experimentally verified interactions between ncRNAs (excluding tRNAs and rRNAs), especially long noncoding RNAs (lncRNAs) and other biomolecules (proteins, mRNAs, miRNAs and genomic DNAs). In NPInter v3.0, interactions pertaining to ncRNAs are not only manually curated from scientific literature but also curated from high-throughput technologies. In addition, we also curated lncRNA-miRNA interactions fromin silicopredictions supported by AGO CLIP-seq data. When compared with NPInter v2.0, the interactions are more informative (with additional information on tissues or cell lines, binding sites, conservation, co-expression values and other features) and more organized (with divisions on data sets by data sources, tissues or cell lines, experiments and other criteria). NPInter v3.0 expands the data set to 491,416 interactions in 188 tissues (or cell lines) from 68 kinds of experimental technologies. NPInter v3.0 also improves the user interface and adds new web services, including a local UCSC Genome Browser to visualize binding sites. Additionally, NPInter v3.0 defined a high-confidence set of interactions and predicted the functions of lncRNAs in human and mouse based on the interactions curated in the database. NPInter v3.0 is available athttp://www.bioinfo.org/NPInter/Database URL:http://www.bioinfo.org/NPInter/.
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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.