Whole-tissue biopsy phenotyping of three-dimensional tumours reveals patterns of cancer heterogeneity

No abstract is available for this paper.

• Publication year

  2017

• Venue

  Nature Biomedical Engineering

• Publication date

  2017-10-01

• Fields of study

  Biology, Medicine

• Identifiers
  DOI 10.1038/s41551-017-0139-0PMID 31015588
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Visualizing Epithelial-Mesenchymal Transition Using the Chromobody Technology.

  2016cited by this paper
• Housing Complexity Alters GFAP-Immunoreactive Astrocyte Morphology in the Rat Dentate Gyrus

  2016cited by this paper
• Intra-tumor Genetic Heterogeneity and Mortality in Head and Neck Cancer: Analysis of Data from The Cancer Genome Atlas

  2015cited by this paper
• Biological and therapeutic impact of intratumor heterogeneity in cancer evolution.

  2015cited by this paper
• Single-cell analysis reveals a stem-cell program in human metastatic breast cancer cells

  2015cited by this paper
• SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function.

  2015cited by this paper
• The cancer stem cell niche: how essential is the niche in regulating stemness of tumor cells?

  2015cited by this paper
• Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas.

  2015cited by this paper
• Pan-cancer analysis of the extent and consequences of intratumor heterogeneity

  2015cited by this paper
• Ultramicroscopy: development and outlook

  2015cited by this paper
• A spatial model predicts that dispersal and cell turnover limit intratumour heterogeneity

  2015cited by this paper
• A Bronchial Genomic Classifier for the Diagnostic Evaluation of Lung Cancer.

  2015cited by this paper
• Tumorigenesis: it takes a village

  2015cited by this paper
• ScaleS: an optical clearing palette for biological imaging

  2015cited by this paper
• Advanced CUBIC protocols for whole-brain and whole-body clearing and imaging

  2015cited by this paper
• Whole-brain imaging with single-cell resolution using chemical cocktails and computational analysis.

  2014cited by this paper
• Multispectral fluorescence ultramicroscopy: three-dimensional visualization and automatic quantification of tumor morphology, drug penetration, and antiangiogenic treatment response.

  2014cited by this paper
• Anchored multiplex PCR for targeted next-generation sequencing

  2014cited by this paper
• Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma

  2014cited by this paper
• Modelling bladder cancer in mice: opportunities and challenges

  2014cited by this paper
• Whole-genome sequencing and comprehensive molecular profiling identify new driver mutations in gastric cancer

  2014cited by this paper
• A simple method for 3D analysis of immunolabeled axonal tracts in a transparent nervous system.

  2014cited by this paper
• Intratumor heterogeneity in localized lung adenocarcinomas delineated by multiregion sequencing

  2014cited by this paper
• iDISCO: a simple, rapid method to immunolabel large tissue samples for volume imaging.

  2014cited by this paper
• Whole-body imaging with single-cell resolution by tissue decolorization.

  2014cited by this paper
• Extensible visualization and analysis for multidimensional images using Vaa3D

  2014cited by this paper
• Single-cell phenotyping within transparent intact tissue through whole-body clearing.

  2014cited by this paper
• Single-cell RNA-seq: advances and future challenges

  2014cited by this paper
• Advanced CLARITY for rapid and high-resolution imaging of intact tissues

  2014cited by this paper
• CLARITY for mapping the nervous system

  2013cited by this paper
• Development and validation of a clinical cancer genomic profiling test based on massively parallel DNA sequencing

  2013cited by this paper
• Clonal heterogeneity as detected by metaphase karyotyping is an indicator of poor prognosis in acute myeloid leukemia.

  2013cited by this paper
• Evolution and impact of subclonal mutations in chronic lymphocytic leukemia.

  2013cited by this paper
• Cancer Genome Landscapes

  2013cited by this paper
• SeeDB: a simple and morphology-preserving optical clearing agent for neuronal circuit reconstruction

  2013cited by this paper
• Influence of tumour micro-environment heterogeneity on therapeutic response

  2013cited by this paper
• Biological imaging software tools

  2012cited by this paper
• Three-dimensional imaging of solvent-cleared organs using 3DISCO

  2012cited by this paper
• Intratumor heterogeneity and branched evolution revealed by multiregion sequencing.

  2012cited by this paper
• NIH Image to ImageJ: 25 years of image analysis

  2012cited by this paper
• Intra-tumour heterogeneity: a looking glass for cancer?

  2012cited by this paper
• Prediction of adverse maternal outcomes in pre-eclampsia: development and validation of the fullPIERS model.

  2011cited by this paper
• Intravesical Interleukin-15 Gene Therapy in an Orthotopic Bladder Cancer Model

  2011cited by this paper
• The epithelial-mesenchymal transition (EMT) phenomenon.

  2010cited by this paper
• Transitions between epithelial and mesenchymal states: acquisition of malignant and stem cell traits

  2009cited by this paper
• Snail, Zeb and bHLH factors in tumour progression: an alliance against the epithelial phenotype?

  2007cited by this paper
• Genetic clonal diversity predicts progression to esophageal adenocarcinoma

  2006cited by this paper
• Re: New guidelines to evaluate the response to treatment in solid tumors (ovarian cancer).

  2005cited by this paper
• Antenatal betamethasone and incidence of neonatal respiratory distress after elective caesarean section: pragmatic randomised trial

  2005cited by this paper
• Re: new guidelines to evaluate the response to treatment in solid tumors [ovarian cancer]. Gynecologic Cancer Intergroup.

  2000cited by this paper
• Regression of bladder tumors in mice treated with interleukin 2 gene- modified tumor cells [published erratum appears in J Exp Med 1993 Jun 1;177(6):following 1831]

  1993cited by this paper
• Computer predictions of abnormal test results. Effects on outpatient testing.

  1988cited by this paper

• NucVerse3D: Generalizable 3D nuclear instance segmentation across heterogeneous microscopy modalities

  2026cites this paper
• Assessing the effects of a 3D pathology tissue-processing workflow on downstream molecular analyses

  2026cites this paper
• Nanoparticle–Host Interactions: The Impact of Physiological and Pathological Factors on Biodistribution, Immune Processes, and Translational Challenges

  2026cites this paper
• Three-Dimensional Reconstruction of Basal Cell and Squamous Cell Carcinomas: Noninvasive Evaluation of Cancerous Tissue Cross Sections and Margins

  2026cites this paper
• aDISCO: A clearing method to enable 3D microscopy of large archival paraffin-embedded human tissue blocks

  2026influential citation
• Site-specific targeting in immunoliposomal nanomedicine for oncology: opportunities and limitations.

  2026cites this paper
• First application of three‐dimensional light sheet fluorescence microscopy to human testicular tumors: New perspectives in histopathology

  2025cites this paper
• Extracellular Vesicle Proteome Analysis Improves Diagnosis of Recurrence in Triple‐Negative Breast Cancer

  2025cites this paper
• Generating 2.5D pathology for enhanced viewing and AI diagnosis

  2025cites this paper
• Clonal diversity shapes the tumour microenvironment leading to distinct immunotherapy responses in metastatic urothelial carcinoma

  2025cites this paper
• Innovative Technologies for Kidney Research: Three-Dimensional Imaging and Quantification

  2025cites this paper
• Clinical applications of artificial intelligence in the histopathology of lymphoma: diagnosis, treatment and prognosis

  2025cites this paper
• Deep tissue optical 3D imaging reveals preferential preservation of extra-islet β-cells in late-onset Type 1 Diabetes

  2025cites this paper
• Biomechanics‐Driven 3D Architecture Inference from Histology Using CellSqueeze3D

  2025cites this paper
• From Hype to Hope: Deconstructing the translational barriers and Charting a new roadmap for Ultrasound-Responsive nanobubbles.

  2025cites this paper
• Comparison of Melanocytic Lesions and Melanomas: A Clinical Pilot Study Based on Optical Coherence Tomography Images and Artificial Intelligence (AI) Models

  2025cites this paper
• Investigating hepatic fibrosis heterogeneity by three-dimensional imaging in metabolic dysfunction-associated steatotic liver disease

  2025cites this paper
• Phototherapy in cancer treatment: strategies and challenges

  2025cites this paper
• Multiplexed spatial imaging at the single-cell level reveals mutually exclusive expression of B7 family proteins.

  2024cites this paper
• 基于光片荧光显微镜的三维病理分析综述（特邀）

  2024cites this paper
• Whole-brain spatial transcriptional analysis at cellular resolution.

  2024cites this paper
• Three-dimensional characteristics of T cells and vasculature in the development of mouse esophageal cancer

  2024cites this paper
• Delivery and kinetics of immersion optical clearing agents in tissues: Optical imaging from ex vivo to in vivo.

  2024cites this paper
• A three dimensional immunolabeling method with peroxidase-fused nanobodies and fluorochromized tyramide-glucose oxidase signal amplification

  2024cites this paper
• Innovative optical imaging strategies for monitoring immunotherapy in the tumor microenvironments

  2024cites this paper
• Ultrasensitive detection of cancer-associated nucleic acids and mutations by primer exchange reaction-based signal amplification and flow cytometry.

  2024cites this paper
• Rapid full-color serial sectioning tomography with speckle illumination and ultraviolet excitation

  2024cites this paper
• Three-dimensional visualization of Hertwig's epithelial root sheath during tooth root development with the miniTESOS tissue clearing method.

  2024cites this paper
• Quantitative cytoarchitectural phenotyping of deparaffinized human brain tissues

  2024cites this paper
• Digital Volumetric Biopsy Cores Improve Gleason Grading of Prostate Cancer Using Deep Learning

  2024cites this paper
• Low-cost and scalable projected light-sheet microscopy for the high-resolution imaging of cleared tissue and living samples

  2024cites this paper
• Tumour Microenvironment-Like Conditions Alter Pancreatic Cancer Cell Metabolism and Behaviour.

  2024cites this paper
• Tumor battlefield within inflamed, excluded or desert immune phenotypes: the mechanisms and strategies

  2024cites this paper
• Three-dimensional imaging of upper tract urothelial carcinoma improves diagnostic yield and accuracy

  2024influential citation
• Atypical artificial cells: Novel biomimetic materials for combating cancer

  2024cites this paper
• Deep 3D histology powered by tissue clearing, omics and AI

  2024cites this paper
• Time-of-flight resolved stimulated Raman scattering microscopy using counter-propagating ultraslow Bessel light bullets generation

  2024cites this paper
• Volumetric imaging of the tumor microvasculature reflects outcomes and genomic states of clear cell renal cell carcinoma

  2024cites this paper
• Triage of 3D pathology data via 2.5D multiple-instance learning to guide pathologist assessments

  2024cites this paper
• Adaptive vignetting elimination microscope

  2024cites this paper
• INSIHGT: an accessible multi-scale, multi-modal 3D spatial biology platform

  2024cites this paper
• Analysis of 3D pathology samples using weakly supervised AI.

  2024cites this paper
• Does FDG PET-Based Radiomics Have an Added Value for Prediction of Overall Survival in Non-Small Cell Lung Cancer?

  2024cites this paper
• Tumor phylogeography reveals block-shaped spatial heterogeneity and the mode of evolution in Hepatocellular Carcinoma

  2024cites this paper
• A robust vessel-labeling pipeline with high tissue clearing compatibility for 3D mapping of vascular networks

  2024cites this paper
• Tissue clearing method in visualization of cancer progression and metastasis

  2024cites this paper
• Extended Enrichment for Ultrasensitive Detection of Low-Frequency Mutations by Long Blocker Displacement Amplification.

  2024cites this paper
• A novel computer-assisted tool for 3D imaging of programmed death-ligand 1 expression in immunofluorescence-stained and optically cleared breast cancer specimens

  2024cites this paper
• Revealing intact neuronal circuitry in centimeter-sized formalin-fixed paraffin-embedded brain

  2024cites this paper
• Highly Multiplexed 3D Profiling of Cell States and Immune Niches in Human Tumours

  2023cites this paper
• Virtual tissue microstructure reconstruction across species using generative deep learning

  2023cites this paper
• A Light sheet fluorescence microscopy and machine learning-based approach to investigate drug and biomarker distribution in whole organs and tumors

  2023cites this paper
• Consultation on UTUC II Stockholm 2022: diagnostic and prognostic methods—what’s around the corner?

  2023cites this paper
• Nanoprobe-based molecular imaging for tumor stratification.

  2023cites this paper
• Tissue optical clearing and 3D imaging of virus infections.

  2023cites this paper
• Weakly Supervised AI for Efficient Analysis of 3D Pathology Samples

  2023cites this paper
• Virtual tissue microstructure reconstruction by deep learning and fluorescence microscopy

  2023cites this paper
• Panoramic tissue examination that integrates three-dimensional pathology imaging and gene mutation: Potential utility in non-small cell lung cancer.

  2023cites this paper
• Volume imaging to interrogate cancer cell-tumor microenvironment interactions in space and time

  2023influential citation
• Advances in nanomaterial-based targeted drug delivery systems

  2023cites this paper
• A Guide to Perform 3D Histology of Biological Tissues with Fluorescence Microscopy

  2023cites this paper
• Tissue clearing and immunostaining to visualize the spatial organization of vasculature and tumor cells in mouse liver

  2023cites this paper
• Detachable Dual-Targeting Nanoparticles for Improving the Antitumor Effect by Extracellular Matrix Depletion.

  2023cites this paper
• Aggregation-Induced Emission Luminogens for Enhanced Photodynamic Therapy: From Organelle Targeting to Tumor Targeting

  2022cites this paper
• Nondestructive 3D Pathology with Light-Sheet Fluorescence Microscopy for Translational Research and Clinical Assays.

  2022cites this paper
• L-asparaginase mediated therapy in L-asparagine auxotrophic cancers: A review.

  2022cites this paper
• Three-dimensional Imaging Reveals Immune-driven Tumor-associated High Endothelial Venules as a Key Correlate of Tumor Rejection Following Depletion of Regulatory T Cells

  2022cites this paper
• A versatile method to archive and delipidate brain tissues for ensuing multiplexed immunolabeling and organ-level imaging

  2022cites this paper
• Multidimensional Imaging of Breast Cancer.

  2022cites this paper
• Lymphatic Drainage System and Lymphatic Metastasis of Cancer Cells in the Mouse Esophagus

  2022cites this paper
• Detection and Morphological Analysis of Micro-Ruptured Cortical Arteries in Subdural Hematoma: Three-Dimensional Visualization Using the Tissue-Clearing Clear, Unobstructed, Brain/Body Imaging Cocktails and Computational Analysis Method

  2022cites this paper
• High-Resolution 3D Heart Models of Cardiomyocyte Subpopulations in Cleared Murine Heart

  2022cites this paper
• A hybrid open-top light-sheet microscope for versatile multi-scale imaging of cleared tissues

  2022cites this paper
• 3D imaging for driving cancer discovery

  2022cites this paper
• A novel classification method for NSCLC based on the background interaction network and the edge-perturbation matrix

  2022cites this paper
• Tumor Customized 2D Supramolecular Nanodiscs for Ultralong Tumor Retention and Precise Photothermal Therapy of Highly Heterogeneous Cancers.

  2022cites this paper
• Optimal Physicochemical Properties of Antibody–Nanoparticle Conjugates for Improved Tumor Targeting

  2022cites this paper
• Feasibility study of dual-modality optical-Raman projection tomography

  2022cites this paper
• Optical tissue clearing associated with 3D imaging: application in preclinical and clinical studies

  2022cites this paper
• Assessment of photoacoustic tomography contrast for breast tissue imaging using 3D correlative virtual histology

  2022cites this paper
• Continuous optical zoom microscope with extended depth of field and 3D reconstruction

  2022cites this paper
• LIMPID: a versatile method for visualization of brain vascular networks.

  2021cites this paper
• SUMIC: A Simple Ultrafast Multicolor Immunolabelling and Clearing Approach for Whole-Organ and Large Tissue 3D Imaging

  2021cites this paper
• Harnessing non-destructive 3D pathology

  2021cites this paper
• Whole-organ analysis of TGF-β-mediated remodelling of the tumour microenvironment by tissue clearing

  2021cites this paper
• Unbiased analysis of obesity related, fat depot specific changes of adipocyte volumes and numbers using light sheet fluorescence microscopy

  2021cites this paper
• A guidebook for DISCO tissue clearing

  2021influential citation
• 3D Whole-Brain Imaging Approaches to Study Brain Tumors

  2021cites this paper
• Large-scale, cell-resolution volumetric mapping allows layer-specific investigation of human brain cytoarchitecture.

  2021cites this paper
• Mesoporous silica nanoparticle: Heralding a brighter future in cancer nanomedicine

  2021cites this paper
• Tutorial: practical considerations for tissue clearing and imaging

  2021cites this paper
• A Straightforward Method for 3D Visualization of B Cell Clusters and High Endothelial Venules in Lymph Nodes Highlights Differential Roles of TNFRI and -II

  2021cites this paper
• Optical tissue clearing and machine learning can precisely characterize extravasation and blood vessel architecture in brain tumors

  2021cites this paper
• Multiplexed single-cell pathology reveals the association of CD8 T-cell heterogeneity with prognostic outcomes in renal cell carcinoma

  2021cites this paper
• Continuous optical zoom microscopy imaging system based on liquid lenses.

  2021cites this paper
• Innovations in ex vivo Light Sheet Fluorescence Microscopy.

  2021cites this paper
• Tissue clearing to examine tumour complexity in three dimensions

  2021cites this paper
• Multiplexed Tissue Tomography.

  2021cites this paper
• Prostate cancer risk stratification via non-destructive 3D pathology with annotation-free gland segmentation and analysis

  2021cites this paper
• Fundamentals and developments in fluorescence-guided cancer surgery

  2021cites this paper