Multiplexed high-throughput immune cell imaging reveals molecular health-associated phenotypes

Functional Precision Medicine Provides Clinical Benefit in Advanced Aggressive Hematologic Cancers and Identifies Exceptional Responders

(2021) Christoph Kornauth et al.   Cancer Discovery

Membrane and organelle dynamics during cell division

(2020) Jeremy G. Carlton et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Single-cell morphology encodes metastatic potential

(2020) Pei-Hsun Wu et al.   Science Advances

Multiplexed single-cell morphometry for hematopathology diagnostics

(2020) Albert G. Tsai et al.   NATURE MEDICINE

FOXO1 deficiency impairs proteostasis in aged T cells

(2020) Jun Jin et al.   Science Advances

A clinically meaningful metric of immune age derived from high-dimensional longitudinal monitoring

(2019) Ayelet Alpert et al.   NATURE MEDICINE

Deep learning for cellular image analysis

(2019) Erick Moen et al.   NATURE METHODS

Single-Cell Genomics: A Stepping Stone for Future Immunology Discoveries

(2018) Amir Giladi et al.   CELL

CD4 T cell autophagy is integral to memory maintenance

(2018) Diane Murera et al.   Scientific Reports

The Ciliary Machinery Is Repurposed for T Cell Immune Synapse Trafficking of LCK

(2018) Louise A. Stephen et al.   DEVELOPMENTAL CELL

Multiplexed protein maps link subcellular organization to cellular states

(2018) Gabriele Gut et al.   SCIENCE

Defective respiration and one-carbon metabolism contribute to impaired naïve T cell activation in aged mice

(2018) Noga Ron-Harel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A deep learning and novelty detection framework for rapid phenotyping in high-content screening

(2017) Christoph Sommer et al.   MOLECULAR BIOLOGY OF THE CELL

Automated analysis of high‐content microscopy data with deep learning

(2017) Oren Z Kraus et al.   Molecular Systems Biology

Global survey of the immunomodulatory potential of common drugs

(2017) Gregory I Vladimer et al.   Nature Chemical Biology

Data-analysis strategies for image-based cell profiling

(2017) Juan C Caicedo et al.   NATURE METHODS

Prospective identification of hematopoietic lineage choice by deep learning

(2017) Felix Buggenthin et al.   NATURE METHODS

Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors

(2017) Alexandra-Chloé Villani et al.   SCIENCE

Accurate Classification of Protein Subcellular Localization from High-Throughput Microscopy Images Using Deep Learning

(2017) Tanel Pärnamaa et al.   G3-Genes Genomes Genetics

Image-based ex-vivo drug screening for patients with aggressive haematological malignancies: interim results from a single-arm, open-label, pilot study

(2017) Berend Snijder et al.   Lancet Haematology

Classification of M1/M2-polarized human macrophages by label-free hyperspectral reflectance confocal microscopy and multivariate analysis

(2017) Francesca R. Bertani et al.   Scientific Reports

Classifying and segmenting microscopy images with deep multiple instance learning

(2016) Oren Z. Kraus et al.   BIOINFORMATICS

Mass Cytometry: Single Cells, Many Features

(2016) Matthew H. Spitzer et al.   CELL

The cellular composition of the human immune system is shaped by age and cohabitation

(2016) Edward J Carr et al.   NATURE IMMUNOLOGY

Coupling changes in cell shape to chromosome segregation

(2016) Nitya Ramkumar et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The FAIR Guiding Principles for scientific data management and stewardship

(2016) Mark D. Wilkinson et al.   Scientific Data

Morphological change of CD4+ T cell during contact with DC modulates T-cell activation by accumulation of F-actin in the immunology synapse

(2015) Wei Lin et al.   BMC IMMUNOLOGY

Microscopy-Based High-Content Screening

(2015) Michael Boutros et al.   CELL

Deep learning

(2015) Yann LeCun et al.   NATURE

The human transcriptome across tissues and individuals

(2015) M. Mele et al.   SCIENCE

Highly multiplexed imaging of single cells using a high-throughput cyclic immunofluorescence method

(2015) Jia-Ren Lin et al.   Nature Communications

A Hierarchical Map of Regulatory Genetic Interactions in Membrane Trafficking

(2014) Prisca Liberali et al.   CELL

Tn5 transposase and tagmentation procedures for massively scaled sequencing projects

(2014) Simone Picelli et al.   GENOME RESEARCH

T-Cell-Receptor-Dependent Signal Intensity Dominantly Controls CD4+ T Cell Polarization In Vivo

(2014) Nicholas van Panhuys et al.   IMMUNITY

Toward performance-diverse small-molecule libraries for cell-based phenotypic screening using multiplexed high-dimensional profiling

(2014) M. J. Wawer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Massively Parallel Single-Cell RNA-Seq for Marker-Free Decomposition of Tissues into Cell Types

(2014) D. A. Jaitin et al.   SCIENCE

Declining NAD+ Induces a Pseudohypoxic State Disrupting Nuclear-Mitochondrial Communication during Aging

(2013) Ana P. Gomes et al.   CELL

Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells

(2013) Alex K. Shalek et al.   NATURE

Modulation of macrophage phenotype by cell shape

(2013) F. Y. McWhorter et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Highly multiplexed single-cell analysis of formalin-fixed, paraffin-embedded cancer tissue

(2013) M. J. Gerdes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Macrophage plasticity and polarization: in vivo veritas

(2012) Antonio Sica et al.   JOURNAL OF CLINICAL INVESTIGATION

Hallmarks of Cancer: The Next Generation

(2011) Douglas Hanahan et al.   CELL

Phenotypic and functional plasticity of cells of innate immunity: macrophages, mast cells and neutrophils

(2011) Stephen J Galli et al.   NATURE IMMUNOLOGY

Origins of regulated cell-to-cell variability

(2011) Berend Snijder et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Single-Cell Mass Cytometry of Differential Immune and Drug Responses Across a Human Hematopoietic Continuum

(2011) S. C. Bendall et al.   SCIENCE

Plasticity of CD4+ T Cell Lineage Differentiation

(2009) Liang Zhou et al.   IMMUNITY

Population context determines cell-to-cell variability in endocytosis and virus infection

(2009) Berend Snijder et al.   NATURE

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Growth Factors, Matrices, and Forces Combine and Control Stem Cells

(2009) D. E. Discher et al.   SCIENCE

Flow cytometric immunophenotyping for hematologic neoplasms

(2008) F. E. Craig et al.   BLOOD

The Rap GTPases Regulate B Cell Morphology, Immune-Synapse Formation, and Signaling by Particulate B Cell Receptor Ligands

(2008) Kevin B.L. Lin et al.   IMMUNITY

How polarity shapes the destiny of T cells

(2008) S. Russell   JOURNAL OF CELL SCIENCE