Quantitative approaches for investigating the spatial context of gene expression

Autor: Je H. Lee
Rok vydání: 2016
Předmět:
Developmental Processes in Health and Disease
0301 basic medicine
Gene Expression
Medicine (miscellaneous)
Focus Article
Computational biology
Biology
Biochemistry
Genetics and Molecular Biology (miscellaneous)

Imaging
03 medical and health sciences
Imaging
Three-Dimensional

0302 clinical medicine
Neoplasms
Gene expression
medicine
Transcriptional regulation
Animals
Humans
In Situ Hybridization
Fluorescence

Regulation of gene expression
Genetics
Spatial contextual awareness
medicine.diagnostic_test
Sequence Analysis
RNA

Fluorescent in situ sequencing
High-Throughput Nucleotide Sequencing
Focus Articles
Nucleic acid amplification technique
Genetic/Genomic Methods
030104 developmental biology
Cellular Microenvironment
Regulatory sequence
Single-Cell Analysis
Nucleic Acid Amplification Techniques
030217 neurology & neurosurgery
Fluorescence in situ hybridization
Zdroj: Wiley Interdisciplinary Reviews. Systems Biology and Medicine
ISSN: 1939-005X
1939-5094
DOI: 10.1002/wsbm.1369
Popis: The spatial information associated with gene expression is important for elucidating the context‐dependent transcriptional regulation during development. Recently, high‐resolution sampling approaches, such as RNA tomography or single‐cell RNA‐seq combined with fluorescence in situ hybridization (FISH), have provided indirect ways to view global gene expression patterns in three dimensions. Now in situ sequencing technologies, such as fluorescent in situ sequencing (FISSEQ), are attempting to visualize the genetic signature directly in microscope images. This article will examine the basic principle of modern in situ and single‐cell genetic methods, hurdles in quantifying intrinsic and extrinsic forces that influence cell decision‐making, and technological requirements for making a visual map of gene regulation, form, and function. Successfully addressing these challenges will be essential for investigating the functional evolution of regulatory sequences during growth, development, and cancer progression. WIREs Syst Biol Med 2017, 9:e1369. doi: 10.1002/wsbm.1369 For further resources related to this article, please visit the WIREs website.
Databáze: OpenAIRE