Related Experiment Video
Updated: Oct 19, 2025
05:27
Author Spotlight: RNA FISH for Locating lncRNA-SNHG6 in Osteosarcoma Cells
Published on: June 16, 2023
1.8K
RNALocate v2.0: an updated resource for RNA subcellular localization with increased coverage and annotation
Tianyu Cui1, Yiying Dou1, Puwen Tan1
1Department of Bioinformatics, School of Basic Medical Sciences, Southern Medical University, Guangzhou 510515, China.
Nucleic Acids Research
|September 22, 2021
Summary
RNALocate v2.0 enhances understanding of cellular biology by providing an updated resource for RNA subcellular localization analysis. This comprehensive tool aids researchers in exploring biological functions and molecular mechanisms within the cell.
Area of Science:
- Molecular Biology
- Genomics
- Bioinformatics
Background:
- Understanding the spatial distribution of the transcriptome at the subcellular level is crucial for advancing biological and disease research.
- The precise localization of RNA molecules within a cell dictates their function and influences cellular processes.
Purpose of the Study:
- To update and enhance RNALocate, a freely accessible resource for RNA subcellular localization analysis.
- To provide researchers with an improved tool for studying biological functions and molecular mechanisms related to RNA localization.
Main Methods:
- Expansion of data sources and species coverage in RNALocate v2.0.
- Integration of RNA-sequencing (RNA-seq) datasets with subcellular localization information.
- Addition and reorganization of RNA information, including localization conditions, homology, interactions, and disease associations.
- Incorporation of three new prediction tools: DM3Loc, iLoc-lncRNA, and iLoc-mRNA.
Main Results:
- RNALocate v2.0 offers expanded data coverage and new analytical tools for RNA subcellular localization.
- The updated resource integrates diverse RNA information, facilitating deeper insights into cellular architecture.
- New prediction tools enhance the capability to analyze RNA localization for different RNA types.
Conclusions:
- RNALocate v2.0 serves as a comprehensive resource for researchers investigating RNA subcellular localization.
- The updated platform aids in deconvoluting the complex cellular architecture and understanding RNA's role in biological functions and diseases.
Related Concept Videos
03:21RNA-seq
10.6K
RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
10.6K
01:46Nuclear Localization Signals and Import
6.4K
Proteins targeted to the nucleus carry short stretches of amino acid sequences called the nuclear localization signal or NLS. Classical nuclear localization signals are of two types: monopartite and bipartite NLS. Monopartite classical NLS (cNLS) consists of a single cluster of 4-8 amino acids. Bipartite cNLS consists of two clusters of 2-3 amino acids and a 9-12 residue long proline-rich linker bridging the two clusters. Signal clusters are rich in positively charged amino acids such as...
6.4K
02:22Regulated mRNA Transport
6.5K
In eukaryotes, transcription and translation are compartmentalized; an mRNA is first synthesized in the nucleus and then selectively transported to the cytoplasm for protein synthesis. Before transport, a pre-mRNA undergoes several steps of post-transcriptional modifications including splicing, 5' capping, and the addition of a poly-adenine tail. Various proteins bind to the pre-mRNA during these modifications. The mRNA transport takes place with the help of multiple proteins playing...
6.5K
01:34Nuclear Protein Sorting
5.2K
Nuclear protein sorting is the selective trafficking of histones, polymerases, gene regulatory proteins into the nucleus and exporting RNAs and ribosomes to the cytosol. It is a tightly controlled process that regulates gene expression within a cell.
Proteins targeted to the nucleus carry nuclear localization signals or NLS recognized by import receptors in the cytosol. Similarly, proteins with nuclear export signals are recognized by export receptors. Import and export receptors are...
Proteins targeted to the nucleus carry nuclear localization signals or NLS recognized by import receptors in the cytosol. Similarly, proteins with nuclear export signals are recognized by export receptors. Import and export receptors are...
5.2K
02:24Ribosome Profiling
3.7K
Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
3.7K
01:27Post-translational Translocation of Proteins to the RER
6.4K
A sizable fraction of proteins destined for ER are first synthesized in the cell cytosol and then transported across the ER membrane–a process called post-translational translocation. Similar to cotranslationally translocated proteins, these proteins also use the Sec translocon complex to enter the ER lumen.
Targeting proteins to the ER
Hsp40 and Hsp70 chaperone molecules bind the translated proteins in the cytosol to prevent their folding. The chaperone binding helps to keep the signal...
Targeting proteins to the ER
Hsp40 and Hsp70 chaperone molecules bind the translated proteins in the cytosol to prevent their folding. The chaperone binding helps to keep the signal...
6.4K