Colorectal Cancer Atlas
The Harvard Tissue Atlas for Colorectal Cancer aims to advance our understanding of the complex spatial interactions that contribute to colorectal cancer. Colorectal cancers are complex assemblies of tumor, immune, and stromal cells that invade adjacent tissue and spread to distant sites. We use highly multiplexed tissue imaging, spatial statistics, and machine learning to identify cell types and states underlying morphological features of known diagnostic and prognostic significance in colorectal cancer. This work is a component of the Human Tumor Atlas Network.
Publications
High-plex immunofluorescence imaging and traditional histology of the same tissue section for discovering image-based biomarkers.
Lin JR, Chen YA, Campton D, Cooper J, Coy S, Yapp C, Tefft JB, McCarty E, Ligon KL, Rodig SJ, Reese S, George T, Santagata S, Sorger PK (2023).
Nature Cancer https://doi.org/10.1038/s43018-023-00576-1
Multiplexed 3D atlas of state transitions and immune interactions in colorectal cancer.
Lin, J.-R., Wang, S., Coy, S., Tyler, M., Yapp, C., Chen, Y.-A., Heiser, C.N., Lau, K.S., Santagata, S., Sorger, P.K. (2023).
Cell, 186(19), 363-381.e19. https://doi.org/10.1016/j.cell.2022.12.028
Data Explorations
Data Explorations are like museum guides and exploit the digital docents in MINERVA to guide readers through the complexities of a large image dataset via a series of narrated stories and waypoints.
Multimodal spatial profiling of colorectal cancer using Orion
Graphical Abstract - Multiplexed 3D atlas of state transitions and immune interactions in colorectal cancer
Pathological annotations - Multiplexed 3D atlas of state transitions and immune interactions in colorectal cancer - CRC01
Multiplexed 3D atlas of state transitions and immune interactions in colorectal cancer (CRC01 Z-stack)
Data Overviews
Data Overviews provide access to minimally processed Level 2 images with no annotation or quality control. Click any of the following thumbnail images for an interactive view of the full-resolution images.
Orion CRC40 - overview - Lin, Chen, Campton et al., 2023
Orion CRC39 - overview - Lin, Chen, Campton et al., 2023
Orion CRC38 - overview - Lin, Chen, Campton et al., 2023
Orion CRC37 - overview - Lin, Chen, Campton et al., 2023
Orion CRC36 - overview - Lin, Chen, Campton et al., 2023
Orion CRC35 - overview - Lin, Chen, Campton et al., 2023
Orion CRC34 - overview - Lin, Chen, Campton et al., 2023
Orion CRC33_02 - overview - Lin, Chen, Campton et al., 2023
Orion CRC33_01 - overview - Lin, Chen, Campton et al., 2023
Orion CRC32 - overview - Lin, Chen, Campton et al., 2023
Orion CRC31 - overview - Lin, Chen, Campton et al., 2023
Orion CRC30 - overview - Lin, Chen, Campton et al., 2023
Orion CRC29 - overview - Lin, Chen, Campton et al., 2023
Orion CRC28 - overview - Lin, Chen, Campton et al., 2023
Orion CRC27 - overview - Lin, Chen, Campton et al., 2023
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Orion CRC23 - overview - Lin, Chen, Campton et al., 2023
Orion CRC22 - overview - Lin, Chen, Campton et al., 2023
Orion CRC21 - overview - Lin, Chen, Campton et al., 2023
Orion CRC08 - overview - Lin, Chen, Campton et al., 2023
Orion CRC20 - overview - Lin, Chen, Campton et al., 2023
Orion CRC19 - overview - Lin, Chen, Campton et al., 2023
Orion CRC18 - overview - Lin, Chen, Campton et al., 2023
Orion CRC17 - overview - Lin, Chen, Campton et al., 2023
Orion CRC16 - overview - Lin, Chen, Campton et al., 2023
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Orion CRC14 - overview - Lin, Chen, Campton et al., 2023
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Orion CRC12 - overview - Lin, Chen, Campton et al., 2023
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Orion CRC04 - overview - Lin, Chen, Campton et al., 2023
Orion CRC03 - overview - Lin, Chen, Campton et al., 2023
Orion CRC02 - overview - Lin, Chen, Campton et al., 2023
Orion CRC01 - overview - Lin, Chen, Campton et al., 2023
CRC18 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC17 - overview - Lin, Wang, Coy et al., 2021
CRC17 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC16 - overview - Lin, Wang, Coy et al., 2021
CRC16 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC15 - overview - Lin, Wang, Coy et al., 2021
CRC15 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC14 - overview - Lin, Wang, Coy et al., 2021
CRC14 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC13 - overview - Lin, Wang, Coy et al., 2021
CRC13 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC12 - overview - Lin, Wang, Coy et al., 2021
CRC12 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC11 - overview - Lin, Wang, Coy et al., 2021
CRC11 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC10 - overview - Lin, Wang, Coy et al., 2021
CRC10 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC08 - overview - Lin, Wang, Coy et al., 2021
CRC09 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC08 - overview - Lin, Wang, Coy et al., 2021
CRC08 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC07 - overview - Lin, Wang, Coy et al., 2021
CRC07 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC06 - overview - Lin, Wang, Coy et al., 2021
CRC06 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC05 - overview - Lin, Wang, Coy et al., 2021
CRC05 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC04 - overview - Lin, Wang, Coy et al., 2021
CRC04 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC03 - overview - Lin, Wang, Coy et al., 2021
CRC03 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC02 - overview - Lin, Wang, Coy et al., 2021
CRC02 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC01 - overview - Lin, Wang, Coy et al., 2021
CRC01 - H&E - overview - Lin, Wang, Coy et al., 2021
CRC01 - 25 CyCIF sections - Lin, Wang, Coy et al, 2021
Funding
This work has been funded by the NCI Human Tumor Atlas Network (Grant U2C-CA233262), the NCI Cancer Systems Biology Program (Grant U54-CA225088), an NIH NCI Research Specialist Award (Grant R50-CA274277), and the The Quadrangle Fund for Advancing and Seeding Translational Research at Harvard Medical School (QFASTR).