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SORC: an integrated spatial omics resource in cancer.

Weiwei Zhou1, Minghai Su1, Tiantongfei Jiang1

  • 1College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, Heilongjiang Province, China.

Nucleic Acids Research
|October 9, 2023
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Summary

We developed the Spatial Omics Resource in Cancer (SORC), a comprehensive database visualizing spatial transcriptomics data. SORC aids in understanding cancer cell interactions and the tumor microenvironment through interactive analysis.

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Area of Science:

  • Oncology
  • Genomics
  • Bioinformatics

Background:

  • Tumor microenvironment interactions are critical in cancer progression and metastasis.
  • Spatial transcriptomics offers novel insights into cellular dynamics within tumors.

Purpose of the Study:

  • To develop an integrated spatial omics resource in cancer (SORC) for interactive visualization and analysis of spatial transcriptomics data.
  • To provide a comprehensive resource for understanding the tumor microenvironment at a spatial level.

Main Methods:

  • Manually curated spatial transcriptomics datasets for 17 cancer types (722,899 spots, 269 slices).
  • Matched single-cell RNA sequencing data (334,379 cells, 46 cell types) to spatial datasets.
  • Integrated five analytical modules: slice annotation, gene variability, cell co-occurrence, functional analysis, and cell-cell communication.

Main Results:

  • SORC provides an interactive platform for exploring spatial transcriptomics data.
  • The resource includes curated data from 17 cancer types and matched single-cell data.
  • Analytical modules enable detailed investigation of cellular interactions and spatial gene expression.

Conclusions:

  • SORC serves as a valuable resource for creating a spatially resolved cellular map of cancer.
  • The platform enhances understanding of the tumor microenvironment by identifying key genes and pathways.