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Related Experiment Video

Updated: Nov 30, 2025

Multiplexed Barcoding Image Analysis for Immunoprofiling and Spatial Mapping Characterization in the Single-Cell Analysis of Paraffin Tissue Samples

Multiplexed Barcoding Image Analysis for Immunoprofiling and Spatial Mapping Characterization in the Single-Cell Analysis of Paraffin Tissue Samples

Published on: April 7, 2023

High-Spatial-Resolution Multi-Omics Sequencing via Deterministic Barcoding in Tissue.

Yang Liu¹, Mingyu Yang¹, Yanxiang Deng¹

¹Department of Biomedical Engineering, Yale University, New Haven, CT 06520, USA; Yale Stem Cell Center and Yale Cancer Center, Yale School of Medicine, New Haven, CT 06520, USA.

|November 14, 2020

Summary

This summary is machine-generated.

Deterministic barcoding in tissue for spatial omics sequencing (DBiT-seq) enables simultaneous mapping of mRNA and proteins in fixed tissues. This technique provides high-resolution spatial omics data for diverse biological research applications.

Keywords:

high spatial resolution in situ barcoding mouse embryo next-generation sequencing spatial multi-omics

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Last Updated: Nov 30, 2025

Multiplexed Barcoding Image Analysis for Immunoprofiling and Spatial Mapping Characterization in the Single-Cell Analysis of Paraffin Tissue Samples

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Published on: April 7, 2023

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Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

Published on: January 10, 2019

Area of Science:

Spatial Omics
Molecular Biology
Genomics

Background:

Spatial omics technologies are crucial for understanding tissue architecture and cellular heterogeneity.
Simultaneous mapping of multiple biomolecules (e.g., mRNA and proteins) at high resolution remains a challenge.

Purpose of the Study:

To develop a novel method, deterministic barcoding in tissue for spatial omics sequencing (DBiT-seq), for co-mapping mRNAs and proteins in fixed tissue slides.
To enable high-resolution spatial transcriptomics and proteomics using next-generation sequencing (NGS).

Main Methods:

DBiT-seq utilizes parallel microfluidic channels to deliver DNA barcodes to a tissue slide surface.
Sequential delivery and in situ ligation of two barcode sets (A and B) create unique 2D barcodes for each tissue pixel.
Next-generation sequencing (NGS) is employed for readout of the spatial omics data.

Main Results:

DBiT-seq successfully co-mapped mRNAs and proteins in formaldehyde-fixed mouse embryo tissues.
High-resolution mapping revealed major tissue types during organogenesis and fine structures like microvasculature and pigmented epithelium.
Gene expression profiles from 10-μm pixels clustered with single-cell transcriptomes, enabling rapid cell type and spatial distribution identification.

Conclusions:

DBiT-seq offers a user-friendly approach for spatial omics, accessible to researchers without microfluidics expertise.
This technique has broad applications in developmental biology, cancer biology, neuroscience, and clinical pathology.
DBiT-seq advances the field of spatial biology by enabling integrated multi-omics analysis in situ.