CRC01-096 and CRC01-097

image/svg+xml
image/svg+xml
image/svg+xml
image/svg+xml
Mucosa
image/svg+xml
Muscularis Mucosa
image/svg+xml
Submucosa
image/svg+xml
Muscularis Propria
image/svg+xml
Subserosa
image/svg+xml
Serosa
image/svg+xml
Invasive Adenocarcinoma, involving Muscularis Propria
image/svg+xml
Invasive Adenocarcinoma, involving Submucosa
image/svg+xml
Invasive Adenocarcinoma, Superficial/luminal Surface
image/svg+xml
Ulcer Bed
image/svg+xml
Invasive Adenocarcinoma, with Mucinous Features
image/svg+xml
Invasive Adenocarcinoma, with Solid Architecture
image/svg+xml
Invasive Adenocarcinoma, with Signet Ring Cell Features
image/svg+xml
Invasive Adenocarcinoma, Tumor Budding Region
image/svg+xml
Bowel Lumen
image/svg+xml
Peritoneal Cavity
image/svg+xml
image/svg+xml
Mucosa
image/svg+xml
Muscularis Mucosa
image/svg+xml
Submucosa
image/svg+xml
Muscularis Propria
image/svg+xml
Subserosa
image/svg+xml
Serosa
image/svg+xml
Invasive Adenocarcinoma, involving Muscularis Propria
image/svg+xml
Invasive Adenocarcinoma, involving Submucosa
image/svg+xml
Invasive Adenocarcinoma, superficial/luminal surface
image/svg+xml
Ulcer Bed
image/svg+xml
Invasive Adenocarcinoma, with Mucinous Features
image/svg+xml
Invasive Adenocarcinoma, with Signet Ring Cell Features
image/svg+xml
Invasive Adenocarcinoma, with Solid Architecture
image/svg+xml
Invasive Adenocarcinoma, Tumor Budding Region
image/svg+xml
Bowel Lumen
image/svg+xml
Peritoneal Cavity
image/svg+xml
image/svg+xml
ROI4
image/svg+xml
ROI3
image/svg+xml
ROI2
image/svg+xml
ROI1
image/svg+xml
ROI5
image/svg+xml
ROI6
image/svg+xml
ROI7
image/svg+xml
image/svg+xml
Germinal center
image/svg+xml
Colonic crypts in longitudinal profile
image/svg+xml
Colonic crypts in cross-section
image/svg+xml
Mucosal stroma, with prominent immune infiltrate
image/svg+xml
Muscularis mucosa
image/svg+xml
Bowel Lumen
image/svg+xml
Adenocarcinoma, poorly differentiated region
image/svg+xml
Submucosa
image/svg+xml
Muscularis Propria
image/svg+xml
image/svg+xml
Bowel Lumen
image/svg+xml
Adenocarcinoma, with glandular architecture
image/svg+xml
Peritumoral stroma
image/svg+xml
Glandular lumen with mucin
image/svg+xml
Adenocarcinoma with cribriform architecture
image/svg+xml
image/svg+xml
Glandular lumen with mucin
image/svg+xml
Adenocarcinoma, with glandular architecture
image/svg+xml
Peritumoral stroma
image/svg+xml
ROI1
image/svg+xml
Ulcer Bed
image/svg+xml
image/svg+xml
Adenocarcinoma, with glandular architecture
image/svg+xml
Glandular lumen with mucin
image/svg+xml
Extracellular mucin pool
image/svg+xml
Peritumoral lymphohistiocytic inflammation
image/svg+xml
Deepest invasive front of tumor
image/svg+xml
Muscularis Propria
image/svg+xml
image/svg+xml
Bowel Lumen
image/svg+xml
Colonic Mucosa
image/svg+xml
Adenocarcinoma, with solid architecture
image/svg+xml
Intracellular mucin vacuole
image/svg+xml
Discohesive and fragmented adenocarcinoma, with focal signet ring cell features
image/svg+xml
image/svg+xml
Muscularis propria
image/svg+xml
Submucosa
image/svg+xml
Peritumoral inflammation
image/svg+xml
Invasive Front
image/svg+xml
Extracellular mucin
image/svg+xml
Adenocarcinoma, with cribriform architecture
image/svg+xml
Carcinomatous glandular lumen in cribfriform structure
image/svg+xml
image/svg+xml
Mucosa
image/svg+xml
Submucosa
image/svg+xml
Prominent peritumoral lymphohistiocytic inflammation
image/svg+xml
Adenocaricnoma, with glandular archiecture
image/svg+xml
Tumor Budding Cell(s)
image/svg+xml
Tumor Budding Cell(s)
image/svg+xml
Tumor Budding Cell(s)
image/svg+xml
image/svg+xml
Tumor Budding Cell(s)
image/svg+xml
Tumor Budding Cell(s)
image/svg+xml
Tumor Budding Cell(s)
image/svg+xml
Tumor Budding Cell(s)
image/svg+xml
Poorly Differentiated Cluster
image/svg+xml
Poorly Differentiated Cluster
image/svg+xml
Main Tumor Mass
image/svg+xml
Main Tumor Mass
image/svg+xml
Poorly Differentiated Cluster
image/svg+xml
Submucosa
image/svg+xml
image/svg+xml
Tumor Budding Cell(s)
image/svg+xml
Tumor Budding Cell(s)
image/svg+xml
Tumor Budding Cell(s)
image/svg+xml
Main Tumor Mass
image/svg+xml
Main Tumor Mass
image/svg+xml
FOXP3+ Treg
image/svg+xml
Macrophages (PD-L1 Positive)
image/svg+xml
FOXP3+ Treg
image/svg+xml
Sparse CD8+ Cytotoxic T Cells
image/svg+xml
Lymphocyte Aggregate with abundant CD4 and CD8 T cells
image/svg+xml
image/svg+xml
Superficial mucosal epithelium with typical mucosal molecular pattern (ROI1-like)
image/svg+xml
Adenocarcinoma, with glandular architecture
image/svg+xml
Adenocarcinoma, with solid architecture
image/svg+xml
Bowel Lumen
image/svg+xml
Atypical deep mucosal epithelium, with molecular pattern resembling glandular adenocarcinoma (ROI2-4-like)
image/svg+xml
image/svg+xml
Atypical deep mucosal epithelium, with molecular pattern resembling glandular adenocarcinoma (ROI2-4-like)
image/svg+xml
Superficial mucosal epithelium with typical mucosal molecular pattern (ROI1-like)
image/svg+xml
Bowel Lumen
image/svg+xml
Adenocarcinoma, with glandular architecture
image/svg+xml
Adenocarcinoma, with solid architecture
image/svg+xml
image/svg+xml
Adenocarcinoma, with glandular architecture
image/svg+xml
Adenocarcinoma, with solid and signet ring cell morphology
image/svg+xml
image/svg+xml
Adenocarcinoma, with glandular architecture
image/svg+xml
Adenocarcinoma, with solid architecture
image/svg+xml
Adenocarcinoma, with solid architecture
image/svg+xml
Adenocarcinoma, with glandular architecture
image/svg+xml
image/svg+xml
Adenocarcinoma, with solid and signet ring cell morphology
image/svg+xml
Adenocarcinoma, with mucinous morphology
image/svg+xml
image/svg+xml
Adenocarcinoma, with solid and signet ring cell morphology
image/svg+xml
Adenocarcinoma, with mucinous features
image/svg+xml
Mucosa
image/svg+xml
image/svg+xml
image/svg+xml

Multiplexed 3D atlas of state transitions and immune interactions in colorectal cancer (Introduction)


1/21

Cancer tissue atlases provide valuable resources for the analysis of cell differentiation, microenvironment composition, tissue architecture, and spatial relationships in 2D, 3D, and hyper-dimensional reference frames. Highly multiplexed immunofluorescence methods such as t-CyCIF (Lin, Izar, Wang, Yapp, Mei, P. Shah, et al., 2018) provides a highly customizable and readily applicable methodology to generate large-scale datasets amenable to image-based computational and visual analysis from macroscopic to sub-cellular resolution. However, few such data sets have been generated or rigorously annotated to date.

Here, we present a virtual atlas of a representative 1.6cm x 1.6cm x 5um formalin-fixed paraffin-embedded (FFPE) section of a primary colorectal adenocarcinoma subjected to standard hematoxylin and eosin (H&E) histochemical staining as well as 24-plex cyclic immunofluorescence (CyCIF) encompassing >10^7 cells. The sample was systematically analyzed via histopathologic examination by a pathologist, single cell segmentation and classification of cell-states by marker expression, and machine learning-based approaches to predict cell-state transitions and spatial relationships at both single cell and tissue-level resolutions. These analyses revealed spatially-organized molecular and morphologic transitions and spatial interactions occurring between diverse cell populations in distinct tumor microenvironments. Furthermore, they demonstrate the advantages of whole-slide 2D and 3D imaging to understand tumor biology at different levels of tissue organization.

Made with
image/svg+xml
image/svg+xml