Spatial Epigenomics Services

Spatial Epigenomics Services

Chromatin state is an important factor in determining the specific functions of genes, which can be dynamically regulated in different cell types. Breakthroughs in massively parallel single-cell sequencing have also enabled single-cell epigenome studies. Meanwhile, researchers have increasingly realized that the spatial information of single cells in tissues and organs is equally important. However, location information for these associations is missing from current single-cell epigenomic data. Thus, the invention of technology to reveal the strong interconnection between how cells are organized in tissues and their functions is necessary. The advent of spatial epigenome sequencing technology has solved this challenge by providing information in understanding biological processes and disease pathogenesis. As a result, spatially resolved epigenetic sequencing technology (spatial epigenomics) will open another new chapter in this cutting-edge field of spatial omics.

Analysis of the spatial epigenetic properties of single cells will greatly enhance the understanding of epigenome impact on cell type development and the control of cell states in complex tissues. High-throughput and high-resolution spatially resolved analysis of epigenetic information will greatly advance the functional understanding of epigenome.

Our Spatial Epigenomics Platform

We have developed a spatial epigenomics platform that combines microfluidics with high-throughput sequencing technologies to detect spatial epigenetic modifications of chromatin in single cells or in a high-throughput and high-resolution manner to analyze epigenetic information in tissues of interest.

Our platform includes spatial-ATAC-seq and spatial-CUT & Tag technology to analyze the spatial chromatin state, providing unprecedented powerful tools for studying epigenetic regulation, cell function, normal physiology, and disease pathogenesis.

Using microfluidics with high-throughput sequencing technologies, we have the ability to image genomic loci as short as a few hundred bases, identify their epigenetic states, and map their spatial distributions in tissues.

Advantages of Spatial Epigenomics Platform

Ultra-high spatial resolution

Enables not only the analysis of single cells but also the probing of subnuclear organization of epigenome.

High throughput to analyze thousands of cells

Wide range of applications to study thousands of epigenetic properties, such as single-cell histone and DNA modifications, binding of transcription factors, cofactors, and noncoding RNAs along genomic DNA model.

Targeted or non-targeted analysis of histone modifications with high spatial resolution

Enabling genome-wide profiling of epigenetic mechanisms in tissues

Sample requirements

Species: human, mouse, rat, etc.

Tissue types: heart, lung, eye, liver, kidney, spleen, stomach, testis, ovary, breast, lymph node, brain, intestine, thyroid, skin, pancreas, bone tissue, etc.

  • You will need to prepare fresh tissue in advance, sample it for isopentane freezing, and then OCT/FFPE for embedding and dry ice shipping.
  • You need to prepare at least three tissue samples; each should not be too large. Our team will work closely with the investigator to select a 2.5 x 2.5 mm2 region for analysis.

Our Workflow

Spatial Epigenomics Services

Application of Spatial Epigenomics

Tumor typing studies

Prediction of potential markers of disease

Analyze cell types and states associated with cellular developmental pathways

Understanding mechanisms of gene regulation and cellular responses to drugs or diseases

Identify transcription factors associated with driving cell fate, disease or response

Epigenetic mechanisms of embryonic development

Study of functional heterogeneity of tumors

Our Spatial Epigenomics Services Include But Not Limited Below:

Spatial ATAC-Seq

Spatial CUT&Tag


  1. Tian Lu et al. Spatially resolved epigenomic profiling of single cells in complex tissues. bioRxiv 2022
  2. Yanxiang Deng et al. Spatial-CUT&Tag: Spatially resolved chromatin modification profiling at the cellular level. Science, 375 (6581)
For research use only, not intended for any clinical use.

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