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Related Concept Videos

RNA-seq03:21

RNA-seq

10.1K
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...
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Ribosome Profiling02:24

Ribosome Profiling

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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...
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Regulated mRNA Transport02:22

Regulated mRNA Transport

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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...
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Related Experiment Video

Updated: Jul 25, 2025

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection
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Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection

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Spatial transcriptomics: Technologies, applications and experimental considerations.

Ye Wang1, Bin Liu2, Gexin Zhao3

  • 1Clinical Laboratory, The Affiliated Qingdao Central Hospital of Medical College of Qingdao University, Qingdao 266042, China.

Genomics
|June 23, 2023
PubMed
Summary
This summary is machine-generated.

Spatial transcriptomics technologies map gene expression within tissues, preserving cellular organization. This overview covers current commercial methods and their applications, aiding researchers in spatial biology experiments.

Keywords:
10× VisiumBMKMANU S1000CosMx SMIGeoMx DSPMERFISHRNA sequencingSpatial transcriptomicsStereo-seqXienum

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Area of Science:

  • Molecular Biology
  • Genomics
  • Cell Biology

Background:

  • Organ function relies on the precise spatial organization of diverse cell types.
  • Understanding gene function requires knowing expression levels, timing, and location.
  • Traditional sequencing methods (bulk and single-cell RNA sequencing) disrupt tissue architecture and lack spatial context.

Purpose of the Study:

  • To provide an overview of current spatial transcriptomics technologies.
  • To focus on commercially available or commercializing platforms.
  • To discuss applications and experimental considerations for spatial biology.

Main Methods:

  • Review of existing and emerging spatial transcriptomics technologies.
  • Categorization of technologies based on applications.
  • Discussion of practical aspects for implementing spatial experiments.

Main Results:

  • Spatial transcriptomics preserves tissue structure, enabling gene expression mapping in situ.
  • Several commercial technologies are available, offering diverse applications.
  • Key experimental considerations for successful spatial experiments are highlighted.

Conclusions:

  • Spatial transcriptomics is crucial for understanding cell-cell communication and tissue function.
  • The rapid development of these technologies offers new avenues for biological discovery.
  • This review guides researchers in selecting and applying spatial transcriptomics methods.