Breast cancer tissue imaging using (H2O)n cluster ion beam secondary ion mass spectrometry

The temporo-spatial organization of different cells in the tumor microenvironment (TME) is the key to understanding their complex communication networks and the immune landscape that exists within compromised tissues. Multi-omics profiling of single interacting cells in the native TME is critical for providing further information regarding the reprograming mechanisms leading to immunosuppression and tumor progression. This requires new technologies for biomolecular profiling of phenotypically heterogeneous cells on the same tissue sample. Here, we developed a new methodology for comprehensive lipidomic and metabolomic profiling of individual cells on frozen-hydrated tissue sections using water gas cluster ion beam secondary ion mass spectrometry ((H2O)n-GCIB-SIMS) (at 1.6 µm resolution), followed by profiling cell type specific lanthanide antibodies on the same tissue section using C60-SIMS (at 1.1 µm resolution). We revealed distinct variations of distribution and intensities of >150 key ions (e.g., lipids and important metabolites) in different types of the TME individual cells, such as actively proliferating tumor cells as well as infiltrating immune cells. The demonstrated feasibility of SIMS imaging to integrate the multi-omics profiling in the same tissue section at the single cell level will lead to new insights into the role of lipid reprogramming and metabolic response in normal regulation or pathogenic discoordination of cell-cell interactions in a variety of tissue microenvironments.

This publication includes all the datasets and scripts for the paper submitted to Analytical Chemistry.

Citation

Tian, Hua (2021). Breast cancer tissue imaging using (H2O)n cluster ion beam secondary ion mass spectrometry [Data set]. Scholarsphere.

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Work Title Breast cancer tissue imaging using (H2O)n cluster ion beam secondary ion mass spectrometry
Access
Open Access
Creators
  1. Hua Tian
Keyword
  1. Tumor microenvironment; Breast cancer; Water gas cluster ion beam secondary ion mass spectrometry ((H2O)n-GCIB-SIMS); Mass spectrometry imaging (MSI)
License In Copyright (Rights Reserved)
Work Type Dataset
Publication Date March 2021
Deposited March 30, 2021

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Version 1
published

  • Created
  • Added Creator Hua Tian
  • Added HCA.ipynb
  • Added multiomics_5-40 pixel.cppipe
  • Added 2020_Jun_05th_Fri_21_58_16_696 2-2 H2O 28k 2um A2 neg.IonoptikaIA2DspectrV2
  • Added 2020_Jun_05th_Fri_21_53_28_535 old 2-2 H2O 28k 1um A2 neg.IonoptikaIA2DspectrV2
  • Added 2020_Jun_19th_Fri_15_17_10_535 old 2-2 A2 C60 pos 02.IonoptikaIA2DspectrV2
  • Added 2020_Jun_13th_Sat_14_41_06_696 2-2 A2 C60 pos 03.IonoptikaIA2DspectrV2
  • Updated Description, License Show Changes
    Description
    • The temporo-spatial organization of different cells in the tumor microenvironment (TME) is the key to understanding their complex communication networks and the immune landscape that exists within compromised tissues. Multi-omics profiling of single interacting cells in the native TME is critical for providing further information regarding the reprograming mechanisms leading to immunosuppression and tumor progression. This requires new technologies for biomolecular profiling of phenotypically heterogeneous cells on the same tissue sample. Here, we developed a new methodology for comprehensive lipidomic and metabolomic profiling of individual cells on frozen-hydrated tissue sections using water gas cluster ion beam secondary ion mass spectrometry ((H2O)n-GCIB-SIMS) (at 1.6 µm resolution), followed by profiling cell type specific lanthanide antibodies on the same tissue section using C60-SIMS (at 1.1 µm resolution). We revealed distinct variations of distribution and intensities of >150 key ions (e.g., lipids and important metabolites) in different types of the TME individual cells, such as actively proliferating tumor cells as well as infiltrating immune cells. The demonstrated feasibility of SIMS imaging to integrate the multi-omics profiling in the same tissue section at the single cell level will lead to new insights into the role of lipid reprogramming and metabolic response in normal regulation or pathogenic discoordination of cell-cell interactions in a variety of tissue microenvironments.
    • The temporo-spatial organization of different cells in the tumor microenvironment (TME) is the key to understanding their complex communication networks and the immune landscape that exists within compromised tissues. Multi-omics profiling of single interacting cells in the native TME is critical for providing further information regarding the reprograming mechanisms leading to immunosuppression and tumor progression. This requires new technologies for biomolecular profiling of phenotypically heterogeneous cells on the same tissue sample. Here, we developed a new methodology for comprehensive lipidomic and metabolomic profiling of individual cells on frozen-hydrated tissue sections using water gas cluster ion beam secondary ion mass spectrometry ((H2O)n-GCIB-SIMS) (at 1.6 µm resolution), followed by profiling cell type specific lanthanide antibodies on the same tissue section using C60-SIMS (at 1.1 µm resolution). We revealed distinct variations of distribution and intensities of >150 key ions (e.g., lipids and important metabolites) in different types of the TME individual cells, such as actively proliferating tumor cells as well as infiltrating immune cells. The demonstrated feasibility of SIMS imaging to integrate the multi-omics profiling in the same tissue section at the single cell level will lead to new insights into the role of lipid reprogramming and metabolic response in normal regulation or pathogenic discoordination of cell-cell interactions in a variety of tissue microenvironments.
    • This publication includes all the datasets and scripts for the paper submitted to Analytical Chemistry.
    License
    • https://rightsstatements.org/page/InC/1.0/
  • Published
  • Updated
  • Updated