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RNA-seq

RNA-seq

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.
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RNA Interference

RNA Interference

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RNA Structure

RNA Structure

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The basic structure of RNA consists of a five-carbon sugar and one of four nitrogenous bases. Although most RNA is single-stranded, it can form complex secondary and tertiary structures. Such structures play essential roles in the regulation of transcription and translation.
Different Types of RNA Have the Same Basic Structure
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RNA Stability

RNA Stability

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RNA Splicing

RNA Splicing

Splicing is the process by which eukaryotic RNA is edited before its translation into protein. The RNA strand transcribed from eukaryotic DNA is called the primary transcript. The primary transcripts that become mRNAs are called precursor messenger RNAs (pre-mRNAs). Eukaryotic pre-mRNA contains alternating sequences of exons and introns. Exons are nucleotide sequences that code for proteins, whereas introns are the non-coding regions. In RNA splicing, introns are removed and exons are bonded...

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RNA Editing

RNA editing is a post-transcriptional modification where a precursor mRNA (pre-mRNA) nucleotide sequence is changed by base insertion, deletion, or modification. The extent of RNA editing varies from a few hundred bases, in mitochondrial DNA of trypanosomes, to a just single base, in nuclear genes of mammals. Even a single base change in the pre-mRNA can convert a codon for one amino acid into the codon for another amino acid or a stop codon. This type of re-coding can significantly affect the...

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Related Experiment Video

Updated: Jan 29, 2026

RNA-seq Analysis of Transcriptomes in Thrombin-treated and Control Human Pulmonary Microvascular Endothelial Cells

RNA-seq Analysis of Transcriptomes in Thrombin-treated and Control Human Pulmonary Microvascular Endothelial Cells

Published on: February 13, 2013

RNA Tomography for Spatially Resolved Transcriptomics (Tomo-Seq).

Karoline Holler¹, Jan Philipp Junker²

¹Berlin Institute for Medical Systems Biology, MDC Berlin, Berlin, Germany.

Methods in Molecular Biology (Clifton, N.J.)

|February 10, 2019

Summary

This summary is machine-generated.

Tomo-seq combines histological sectioning with RNA sequencing to map gene expression in embryos. This novel method enables the reconstruction of spatial gene expression for thousands of genes in zebrafish embryos.

Keywords:

Developmental patterning Gene expression mapping Local gene expression Morphogen gradients Spatial transcriptomics mRNA sequencing

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Last Updated: Jan 29, 2026

RNA-seq Analysis of Transcriptomes in Thrombin-treated and Control Human Pulmonary Microvascular Endothelial Cells

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Published on: February 13, 2013

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Mining Spatial Transcriptomics Datasets using DeepSpaceDB

Mining Spatial Transcriptomics Datasets using DeepSpaceDB

Published on: September 5, 2025

Area of Science:

Developmental Biology
Genomics
Molecular Biology

Background:

Embryonic development relies on precise gene expression timing and location.
Understanding spatial gene expression is key to identifying developmental regulators.
Current methods lack either global coverage or spatial resolution.

Purpose of the Study:

To introduce a novel method for spatially resolved gene expression analysis.
To overcome limitations of existing in situ and sequencing techniques.
To enable comprehensive mapping of gene expression patterns during embryogenesis.

Main Methods:

Development of tomo-seq, integrating histological sectioning with RNA sequencing.
Application of tomo-seq to zebrafish embryos.
Reconstruction of spatial gene expression data.

Main Results:

Tomo-seq successfully maps the spatial distribution of thousands of genes.
The method provides high-resolution spatial gene expression data.
Successfully reconstructed spatial gene expression in zebrafish embryos.

Conclusions:

Tomo-seq is a powerful new technique for studying spatial gene expression.
This method facilitates the discovery of novel developmental regulators.
Enables a deeper understanding of gene function in embryonic development.