lncInfo: A comprehensive resource on lncRNA

Existing tools performing subcellular localization prediction

On this page, we have enlisted the popular experimental techniques that are used to investigate lncRNA biology. Most of the techniques are either based on RNA imaging or RNA profiling. Click on the headers to sort them accordingly.

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Experimental methods	Brief description
APEX-RIP	APEX-RIP (Ascorbate Peroxidase Proximity-Dependent Biotinylation with RNA Interaction Profiling) is a method used to identify RNA-protein interactions on a transcriptome-wide scale.
Biochemical Fractionation + RNA-Seq	A method combining biochemical fractionation of cells and high-throughput RNA sequencing that enables rapid and efficient systematic mapping of RNA cytotopic distributions in cells.
Cas system	CRISPR-mediated RNA imaging technique involves the use of a modified CRISPR-Cas system that targets specific RNA molecules and recruits fluorescent proteins to them
ClampFISH	ClampFISH (click-amplifying fluorescence in situ hybridization) is a modified version of FISH with improved specificity and signal amplification
degradome-seq	Degradome-seq is another high-throughput sequencing-based method used to study RNA molecules, but it focuses on identifying the specific cleavage sites of endonucleases, such as miRNA-guided endonucleases, on target RNAs.
FISSEQ	FISSEQ (Fluorescent In Situ Sequencing) is a spatial transcriptomics technique that combines FISH with next-generation sequencing to enable high-throughput, multiplexed detection of RNA molecules and their precise spatial locations within tissues, providing a comprehensive view of gene expression patterns.
FragSeq	FragSeq (Fragmentation Sequencing) is a high-throughput sequencing-based method used to study RNA structure and folding
GRO-seq	GRO-seq (Global Run-On sequencing) is a method used to study transcriptional activity of the genome at a global scale.
HyblSS	Hybridization-based in situ sequencing (HybISS) is a method that combines in situ hybridization with DNA sequencing to detect and identify RNA molecules at the single-cell level, allowing for spatially resolved transcriptomics analysis.
inoFISH	inoFISH (inosine fluorescence in situ hybridization) can directly visualize and quantify adenosine-to-inosine edited transcripts in situ

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