Abstract

Transcriptome mapping in the 3D brain RNA sequencing samples the entire transcriptome but lacks anatomical information. In situ hybridization, on the other hand, can only profile a small number of transcripts. In situ sequencing technologies address these shortcomings but face a challenge in dense, complex tissue environments. Wang et al. combined an efficient sequencing approach with hydrogel-tissue chemistry to develop a multidisciplinary technology for three-dimensional (3D) intact-tissue RNA sequencing (see the Perspective by Knöpfel). More than 1000 genes were simultaneously mapped in sections of mouse brain at single-cell resolution to define cell types and circuit states and to reveal cell organization principles. Science , this issue p. eaat5691 ; see also p. 328

Keywords

TranscriptomeComputational biologyBiologySingle cell sequencingRNAIn situ hybridizationDNA sequencingDeep sequencingIllumina dye sequencingIn situGeneGeneticsGene expressionGenomeChemistryExome sequencingPhenotype

MeSH Terms

AnimalsChromosome MappingFrontal LobeImagingThree-DimensionalMaleMiceMiceInbred C57BLMolecular ImagingNeuronsSequence AnalysisRNASingle-Cell AnalysisSomatosensory CortexTranscriptionGeneticTranscriptomeVisual Cortex

Affiliated Institutions

Related Publications

Publication Info

Year
2018
Type
article
Volume
361
Issue
6400
Citations
1550
Access
Closed

External Links

Download PDF (Free) View on DOI.org PubMed Semantic Scholar

Social Impact

Altmetric
PlumX Metrics

Social media, news, blog, policy document mentions

Citation Metrics

1550
OpenAlex
61
Influential
1365
CrossRef

Cite This

Xiao Wang, William E. Allen, Matthew A. Wright et al. (2018). Three-dimensional intact-tissue sequencing of single-cell transcriptional states. Science , 361 (6400) . https://doi.org/10.1126/science.aat5691

Identifiers

DOI
10.1126/science.aat5691
PMID
29930089
PMCID
PMC6339868

Data Quality

Data completeness: 90%