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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New 3D Atlas of Colorectal Cancer Promises Improved Diagnosis, Treatment
Tabak, L. 2023, January 31. NIH Director's Blog
News
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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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2D and 3D Maps Provide New Insight Into Colorectal Cancer
2023, January 20. Applied Radiation Oncology
News
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3D Spatial Colorectal Cancer Maps Combine Molecular and Histological Features
2023, January 20. Genetic Engineering and Biotechnology News
News
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An Unprecedented Look at Colorectal Cancer
Caruso, C. 2023, January 19. Harvard News
News
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Data Deep Dive
Caruso, C. 2022, April 20. Harvard News
News
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Getting Under Our Skin
Caruso, C. 2022, April 14. Harvard News
News
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Atlas maker: Q & A with Peter Sorger
2022, April 20. Ludwig Cancer Research
News

Publications & Software

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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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Temporal and spatial topography of cell proliferation in cancer
Gaglia et al. 2022. Nature Cell Biology
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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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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Multiplexed 3D atlas of state transitions and immune interactions in colorectal cancer (Graphical Abstract)
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Genetically engineered mouse model of lung adenocarcinoma
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Temporal and spatial topography of cell proliferation in cancer
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Lung 3 Data Analysis - Du and Lin et al
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Plexiform Schwannoma (Larynx)