Online Tools

Lncident – A Tool for Rapid Identification of Long Noncoding RNAs

lncrna

More and more studies have demonstrated that long noncoding RNAs (lncRNAs) play critical roles in diversity of biological process and are also associated with various types of disease. How to rapidly identify lncRNAs and messenger RNA is the fundamental step to uncover the function of lncRNAs identification. Researchers at Jilin University have devloped a novel method for rapid identification of ...

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IntNetLncSim – an integrative network analysis method to infer human lncRNA functional similarity

Increasing evidence indicated that long non-coding RNAs (lncRNAs) were involved in various biological processes and complex diseases by communicating with mRNAs/miRNAs each other. Exploiting interactions between lncRNAs and mRNA/miRNAs to lncRNA functional similarity (LFS) is an effective method to explore function of lncRNAs and predict novel lncRNA-disease associations. Researchers from Harbin Medical University have proposed an integrative framework, IntNetLncSim, to ...

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New tool predicts the interaction of proteins and RNA

CRG Researchers developed Global Score, a method that allows, for the first time, to predict protein interactions with long non-coding RNAs. This algorithm helps scientists prioritize binding partners for experimental validation, which will contribute to our understanding of the role of long non-coding RNAs in normal cell function and in disease. Far from just reading the information contained in the ...

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LncPriCNet – Global Prioritizing Disease Candidate lncRNAs via a Multi-level Composite Network

lncRNA

LncRNAs play pivotal roles in many important biological processes, but research on the functions of lncRNAs in human disease is still in its infancy. Therefore, it is urgent to prioritize lncRNAs that are potentially associated with diseases. Researchers from the Shanghai Jiao Tong University have developed a novel algorithm, LncPriCNet, that uses a multi-level composite network to prioritize candidate lncRNAs ...

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Urb-RIP – An Adaptable and Efficient Approach for Immunoprecipitation of lncRNAs and Associated RNAs/Proteins

Post-transcriptional regulation of gene expression is an important process that is mediated by interactions between mRNAs and RNA binding proteins (RBP), non-coding RNAs (ncRNA) or ribonucleoproteins (RNP). Key to the study of post-transcriptional regulation of mRNAs and the function of ncRNAs such as long non-coding RNAs (lncRNAs) is an understanding of what factors are interacting with these transcripts. While several ...

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Slncky – evolutionary analysis across mammals reveals distinct classes of long non-coding RNAs

lncRNA

Recent advances in transcriptome sequencing have enabled the discovery of thousands of long non-coding RNAs (lncRNAs) across many species. Though several lncRNAs have been shown to play important roles in diverse biological processes, the functions and mechanisms of most lncRNAs remain unknown. Two significant obstacles lie between transcriptome sequencing and functional characterization of lncRNAs: identifying truly non-coding genes from de ...

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AnnoLnc – a web server for systematically annotating novel human lncRNAs

lncRNA

Long noncoding RNAs (lncRNAs) have been shown to play essential roles in almost every important biological process through multiple mechanisms. Although the repertoire of human lncRNAs has rapidly expanded, their biological function and regulation remain largely elusive, calling for a systematic and integrative annotation tool. Here researchers from Peking University present AnnoLnc, a one-stop portal for systematically annotating novel human ...

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DeepLNC, a long non-coding RNA prediction tool using a deep neural network

lncRNA

The significant role of long non-coding RNAs (lncRNAs) in various cellular functions, such as gene imprinting, immune response, embryonic pluripotency, tumorogenesis, and genetic regulations, has been widely studied and reported in recent years. Several experimental and computational methods involving genome-wide search and screenings of ncRNAs are being proposed utilizing sequence features-length, occurrence, and composition of bases with various limitations. Researchers ...

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spongeScan – a graphical web tool for detecting microRNA binding elements in lncRNA sequences

lncRNA

Non-coding RNA transcripts such as microRNAs (miRNAs) and long non-coding RNAs (lncRNAs) are important genetic regulators. However, the functions of many of these transcripts are still not clearly understood. Recently, it has become apparent that there is significant crosstalk between miRNAs and lncRNAs and that this creates competition for binding between the miRNA, a lncRNA and other regulatory targets. Indeed, ...

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LncRNA2Function – a comprehensive resource for functional investigation of human lncRNAs based on RNA-seq data

lncRNA

The GENCODE project has collected over 10,000 human long non-coding RNA (lncRNA) genes. However, the vast majority of them remain to be functionally characterized. Computational investigation of potential functions of human lncRNA genes is helpful to guide further experimental studies on lncRNAs. In this study, based on expression correlation between lncRNAs and protein-coding genes across 19 human normal tissues, researchers ...

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