Vizgen is developing the next generation of genomics tools to expand on the capabilities of spatially resolved transcriptomics. Our technology will aide the acceleration of biological research and discovery to advance human health. Access supporting resources by selecting the category below.
This technical note describes a MERSCOPE sample preparation protocol for cultured cells without the gel embedding steps, which simplifies the standard workflow and shortens the protocol by one day without compromising data quality. Additional sample…
In the past half-century, multiomic analysis—genomics, proteomics, transcriptomics, and beyond—has revolutionized our understanding of biology. However, there is still a vast wealth of information left to uncover through the integration of spatial context and transcriptomic…
Abstract: Defining changes in gene expression during health and disease is critical for the understanding of human physiology. In recent years, single cell/nuclei RNA sequencing (sc/snRNAseq) has revolutionized the definition and discovery of cell types…
Abstract: The human cerebral cortex has tremendous cellular diversity. How different cell types are organized in the human cortex and how cellular organization varies across species remain unclear. In this study, we performed spatially resolved…
This notebook demonstrates how to use Scanpy to perform data pre-processing, dimensionality reduction, and single-cell Leiden clustering. This notebook is designed to take the Anndata output from the MERSCOPE Vizualizer and return a new Anndata…
Abstract: Here, we leveraged a large neoadjuvant PD-1 blockade trial in patients with hepatocellular carcinoma (HCC) to search for correlates of response to immune checkpoint blockade (ICB) within T cell-rich tumors. We show that ICB…
Current spatial transcriptomics methods identify cell states in a spatial context but lack morphological information. Scanning electron microscopy, in contrast, provides structural details at nanometer resolution but lacks molecular decoding of the diverse cellular states….
Formalin-fixed paraffin-embedded (FFPE) tissues are widely used clinical sample types for histology and molecular diagnosis. However, due to RNA degradation and protein cross-linking, FFPE samples are often challenging for single-cell transcriptomic analysis. Vizgen’s in situ…
Abstract: MERFISH (multiplexed error-robust fluorescence in situ hybridization) is a novel single-cell transcriptomics technology that captures spatial gene expression patterns across whole tissue slices with sub-cellular resolution.1 However, it can be difficult for researchers to…
MERSCOPE FFPE Data Advantages • High reproducibility between matched fresh frozen and formalin fixed paraffin embedded tissue samples ensures biologically impactful data • Unmatched accuracy with bulk RNA-sequencing data across the entire expression profile provides…