Tissue and tumor atlases revolutionize our understanding of disease progression and therapeutic response. They provide precise molecular data on cell types, states, and interactions in a preserved 3D environment to improve diagnosis and disease management.

Navigating Spatial Biology

The Harvard Tissue Atlas (HTA) gathers together image and omic datasets into molecular maps. Our atlases bring together multiple research projects examining normal and diseased tissue from human and animal models, with an emphasis on cancer. The goal of these atlases is to describe the myriad of interactions that occur between cells and acellular structures within tissues to advance our understanding of disease initiation and progression. This will help develop a new generation of diagnostic molecular tests, which are needed for disease stratification in clinical trials and precision medicine for patients.

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News

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'Multiplexed 3D atlas' selected as the Best of Cell 2023
2023. Cell
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'High-plex immunofluorescence imaging' featured in Nature Cancer’s 2023 in Review
2023, December 15. Nature Cancer
News
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Live Cell Imaging IDs Bad Actors in Cancer and Finds Possible Ways to Defeat Them
2023, July 25. Dana Farber Cancer Institute
News
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A New Tool for Diagnosing Cancer
Caruso, C. 2023, June 22. HMS News
News
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New 3D Atlas of Colorectal Cancer Promises Improved Diagnosis, Treatment
Tabak, L. 2023, January 31. NIH Director's Blog
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Ludwig Harvard imaging study reveals cellular, molecular and structural complexity of colorectal tumors
Tabak, L. 2023, January 23. Ludwig Cancer Research
News
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An Unprecedented Look at Colorectal Cancer
Caruso, C. 2023, January 19. Harvard News
News
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Getting Under Our Skin
Caruso, C. 2022, April 14. Harvard News
News

Publications & Software

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Qualification of a multiplexed tissue imaging assay and detection of novel patterns of HER2 heterogeneity in breast cancer
Guerriero, Lin JR, et al. 2024. npj Breast Cancer
Publication
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High-plex immunofluorescence imaging and traditional histology of the same tissue section for discovering image-based biomarkers
Lin, et al. 2023. Nature Cancer
Publication
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Multiplexed 3D atlas of state transitions and immune interaction in colorectal cancer
Lin, et al. 2023. Cell
Publication
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Spatial intra-tumor heterogeneity is associated with survival of lung adenocarcinoma patients
Wu, et al. 2022. Cell Genomics
Publication
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Minerva
A suite of software tools for interpreting, interacting with, and sharing complex image data.
Software
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The spatial landscape of progression and immunoediting in primary melanoma at single cell resolution
Nirmal, et al. 2022. Cancer Discovery
Publication Software
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ASHLAR
A Python tool for image registration and stitching.
Publication Software
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MCMICRO: A multiple-choice microscopy pipeline
An end-to-end processing pipeline for multiplexed whole tissue imaging and tissue microarrays.
Publication Software

Featured Atlas/Data

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TMA of 16 Breast Cancer Samples and Normal Tissue (BC03)
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Nuclear envelope atypia and rupture in human glioblastoma
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Graphical Abstract - Multiplexed 3D atlas of state transitions and immune interactions in colorectal cancer
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Exploring the Stages of Tuberculosis Granulomas
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Patient 2 - Melanoma in situ, invasive melanoma, precursor field and inflammatory regression
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Deep Exploration of a Primary Melanoma (MEL 1 Full Story)
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Lung 3 Data Analysis - Du and Lin et al
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Multimodal spatial profiling of colorectal cancer using Orion