4.5 Review

Multiplexed Ion Beam Imaging: Insights into Pathobiology

Related references

Note: Only part of the references are listed.
Article Biotechnology & Applied Microbiology

Whole-cell segmentation of tissue images with human-level performance using large-scale data annotation and deep learning

Noah F. Greenwald et al.

Summary: In this study, the researchers created the TissueNet dataset and developed the Mesmer segmentation algorithm based on deep learning to address the challenge of cell segmentation. Mesmer showed improved accuracy, generalization to various tissue types and imaging platforms, and achieved human-level performance.

NATURE BIOTECHNOLOGY (2022)

Article Biotechnology & Applied Microbiology

Single-cell metabolic profiling of human cytotoxic T cells

Felix J. Hartmann et al.

Summary: This antibody-based method allows profiling of metabolic protein expression and regulation in single cells using mass spectrometry while characterizing cellular phenotype. The approach was validated using mass cytometry and applied to clinical samples, revealing tissue-restricted, metabolically repressed immune cells in human colorectal carcinoma. The combination with multiplexed ion beam imaging unveiled the spatial organization of metabolic programs in human tissues.

NATURE BIOTECHNOLOGY (2021)

Article Biochemical Research Methods

DeepCell Kiosk: scaling deep learning-enabled cellular image analysis with Kubernetes

Dylan Bannon et al.

Summary: Deep learning is changing the analysis of biological images, and the DeepCell Kiosk is a cloud-native software that can dynamically scale deep learning workflows for large imaging datasets. This software allows for efficient identification of cell nuclei in large-scale images at a relatively low cost, demonstrating scalability and affordability.

NATURE METHODS (2021)

Review Cell Biology

Can mouse models mimic sporadic Alzheimer's disease?

Bettina M. Foidl et al.

NEURAL REGENERATION RESEARCH (2020)

Article Biochemical Research Methods

Modeling Multiplexed Images with Spatial-LDA Reveals Novel Tissue Microenvironments

Zhenghao Chen et al.

JOURNAL OF COMPUTATIONAL BIOLOGY (2020)

Article Clinical Neurology

2020 Alzheimer's disease facts and figures

[Anonymous]

ALZHEIMERS & DEMENTIA (2020)

Article Oncology

Cancer Outcomes in DCIS Patients Without Locoregional Treatment

Marc D. Ryser et al.

JNCI-JOURNAL OF THE NATIONAL CANCER INSTITUTE (2019)

Review Medicine, Research & Experimental

Revisiting hypoxia therapies for tuberculosis

Stefan H. Oehlers

CLINICAL SCIENCE (2019)

Review Clinical Neurology

The basis of cellular and regional vulnerability in Alzheimer's disease

Dunja Mrdjen et al.

ACTA NEUROPATHOLOGICA (2019)

Article Biotechnology & Applied Microbiology

Immuno-SABER enables highly multiplexed and amplified protein imaging in tissues

Sinem K. Saka et al.

NATURE BIOTECHNOLOGY (2019)

Article Multidisciplinary Sciences

MIBI-TOF: A multiplexed imaging platform relates cellular phenotypes and tissue structure

Leeat Keren et al.

SCIENCE ADVANCES (2019)

Article Biochemistry & Molecular Biology

Deep Profiling of Mouse Splenic Architecture with CODEX Multiplexed Imaging

Yury Goltsev et al.

Article Immunology

PD-1 Controls Follicular T Helper Cell Positioning and Function

Jingwen Shi et al.

IMMUNITY (2018)

Review Clinical Neurology

Alzheimer's disease: experimental models and reality

Eleanor Drummond et al.

ACTA NEUROPATHOLOGICA (2017)

Review Neurosciences

Practical considerations for choosing a mouse model of Alzheimer's disease

Joanna L. Jankowsky et al.

MOLECULAR NEURODEGENERATION (2017)

Review Immunology

Heterogeneity in tuberculosis

Anthony M. Cadena et al.

NATURE REVIEWS IMMUNOLOGY (2017)

Article Biochemical Research Methods

Automated mapping of phenotype space with single-cell data

Nikolay Samusik et al.

NATURE METHODS (2016)

Article Biochemical Research Methods

Deep Learning Automates the Quantitative Analysis of Individual Cells in Live-Cell Imaging Experiments

David A. Van Valen et al.

PLOS COMPUTATIONAL BIOLOGY (2016)

Article Oncology

Molecular phenotypes of DCIS predict overall and invasive recurrence

K. E. Williams et al.

ANNALS OF ONCOLOGY (2015)

Article Biochemical Research Methods

FlowSOM: Using self-organizing maps for visualization and interpretation of cytometry data

Sofie Van Gassen et al.

CYTOMETRY PART A (2015)

Article Medicine, Research & Experimental

Immunohistochemistry and mass spectrometry for highly multiplexed cellular molecular imaging

Richard M. Levenson et al.

LABORATORY INVESTIGATION (2015)

Article Biochemistry & Molecular Biology

Multiplexed ion beam imaging of human breast tumors

Michael Angelo et al.

NATURE MEDICINE (2014)

Article Biochemical Research Methods

Highly multiplexed imaging of tumor tissues with subcellular resolution by mass cytometry

Charlotte Giesen et al.

NATURE METHODS (2014)

Article Multidisciplinary Sciences

Automated identification of stratifying signatures in cellular subpopulations

Robert V. Bruggner et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)

Review Immunology

Tertiary lymphoid structures in cancer and beyond

Marie-Caroline Dieu-Nosjean et al.

TRENDS IN IMMUNOLOGY (2014)

Article Anatomy & Morphology

Distinct Types of Lipofuscin Pigment in the Hippocampus and Cerebellum of Aged Cheirogaleid Primates

Emmanuel P. Gilissen et al.

ANATOMICAL RECORD-ADVANCES IN INTEGRATIVE ANATOMY AND EVOLUTIONARY BIOLOGY (2013)

Review Endocrinology & Metabolism

Blood-brain barrier dysfunction as a cause and consequence of Alzheimer's disease

Michelle A. Erickson et al.

JOURNAL OF CEREBRAL BLOOD FLOW AND METABOLISM (2013)

Review Immunology

Revisiting the role of the granuloma in tuberculosis

Lalita Ramakrishnan

NATURE REVIEWS IMMUNOLOGY (2012)

Review Neurosciences

Adult hippocampal neurogenesis and its role in Alzheimer's disease

Yangling Mu et al.

MOLECULAR NEURODEGENERATION (2011)

Article Multidisciplinary Sciences

Low CD10 mRNA Expression Identifies High-Risk Ductal Carcinoma In Situ (DCIS)

Jerome Toussaint et al.

PLOS ONE (2010)

Editorial Material Biochemistry & Molecular Biology

Who Benefits from Granulomas, Mycobacteria or Host?

Tyler D. Bold et al.

Article Biochemistry & Molecular Biology

The Role of the Granuloma in Expansion and Dissemination of Early Tuberculous Infection

J. Muse Davis et al.

Article Clinical Neurology

Reduced hippocampal functional connectivity in Alzheimer disease

Greg Allen et al.

ARCHIVES OF NEUROLOGY (2007)

Review Oncology

The natural history of ductal carcinoma in situ of the breast:: a review

B Erbas et al.

BREAST CANCER RESEARCH AND TREATMENT (2006)

Article Oncology

Automated quantitative analysis (AQUA) of in situ protein expression, antibody concentration, and prognosis

A McCabe et al.

JNCI-JOURNAL OF THE NATIONAL CANCER INSTITUTE (2005)

Article Oncology

Myoepithelial cells: Autocrine and paracrine suppressors of breast cancer progression

Sanford H. Barsky et al.

JOURNAL OF MAMMARY GLAND BIOLOGY AND NEOPLASIA (2005)