ArticleCell systems2022
Tissue schematics map the specialization of immune tissue motifs and their appropriation by tumors.
Article in Cell systems, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 56 papers.
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Who cites it
56 citing papers in PubMed.
- Spatiotemporal mapping of tertiary lymphoid structure heterogeneity shapes immune niches and clinical outcomes in intrahepatic cholangiocarcinoma.Science advances · 2026Article
- Beyond benchmarking: an expert-guided consensus approach to spatially aware clustering.Nature methods · 2026Article
- Dynamic remodeling of the pancreas immune landscape in obesity.Nature communications · 2026Article
- Spatium: A Protein Language Foundation Model for Spatial Proteomics.bioRxiv : the preprint server for biology · 2026Article
- Single-cell spatial pharmacobiology identifies conserved stromal barriers to therapeutic antibody delivery in human solid tumors.Nature biotechnology · 2026Article
- Integrating Spatial Proteogenomics in Cancer Research.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Review
- Spatial omics in high-grade glioma: study design, analytical pitfalls, and standards for reproducible neuro-oncology.Acta neuropathologica communications · 2026Review
- MINGL Quantifies Borders, Gradients, and Heterogeneity in Multicellular Tissue Organization.bioRxiv : the preprint server for biology · 2026Article
- Lymph node colonization induces tissue remodeling via immunosuppressive fibroblast-myeloid cell niches supporting metastatic tolerance.Cancer cell · 2026Article
- HRCHY-CytoCommunity identifies hierarchical tissue organization in cell-type spatial maps.Nature communications · 2026Article
- Comparative Evaluation of Antibody-Oligonucleotide Conjugation Strategies for Multiplexed Imaging Applications.Laboratory investigation; a journal of technical methods and pathology · 2026Article
- Spatial profiling of longitudinal glioblastoma reveals consistent changes in cellular architecture, post-treatment.Neuro-oncology · 2025Article
- SPACEc: a streamlined, interactive Python workflow for multiplexed image processing and analysis.Nature communications · 2025Article
- Beyond benchmarking: an expert-guided consensus approach to spatially aware clustering.bioRxiv : the preprint server for biology · 2025Article
- Colorectal cancer relies on an immunosuppressive cellular topography and genomic adaptations for establishing brain metastases.bioRxiv : the preprint server for biology · 2025Article
- Bridging single cells to organs: Mesoscale modules as fundamental units of tissue function.Cell · 2025Review
- Concerted changes in Epithelium and Stroma: a multi-scale, multi-omics analysis of progression from Barrett's Esophagus to adenocarcinoma.Developmental cell · 2025Article
- TrimNN: characterizing cellular community motifs for studying multicellular topological organization in complex tissues.Nature communications · 2025Article
- CytoSpatio: Learning cell type spatial relationships using multirange, multitype point process models.PLoS computational biology · 2025Article
- Spatially organized inflammatory myeloid-CD8bioRxiv : the preprint server for biology · 2025Article
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Abstract
A schematic of a biological system, i.e., a representation of its pieces, how they are combined, and what they do, would facilitate understanding its essential organization and alteration in pathogenesis or evolution. We present a computational approach for constructing tissue schematics (TSs) from high-parameter imaging data and a biological model for interpreting them. TSs map the spatial assembly of cellular neighborhoods into tissue motifs, whose modular composition, we propose, enables the generation of complex outputs. We developed our approach in human lymphoid tissue (HLT), identifying the follicular outer zone as a potential relay between neighboring zones and a core lymphoid assembly with modifications characteristic of each HLT type. Applying the TS approach to the tumor microenvironment in human colorectal cancer identified a higher-order motif, whose mutated assembly was negatively associated with patient survival. TSs may therefore elucidate how immune architectures can be specialized and become vulnerable to reprogramming by tumors.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.