Rapid 3D phenotypic analysis of neurons and organoids using data-driven cell segmentation-free machine learning

Mapping mesoscale axonal projections in the mouse brain using a 3D convolutional network

(2020) Drew Friedmann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Keras R-CNN: library for cell detection in biological images using deep neural networks

(2020) Jane Hung et al.   BMC BIOINFORMATICS

Deep learning for cellular image analysis

(2019) Erick Moen et al.   NATURE METHODS

CellProfiler 3.0: Next-generation image processing for biology

(2018) Claire McQuin et al.   PLOS BIOLOGY

Deep Learning in Image Cytometry: A Review

(2018) Anindya Gupta et al.   CYTOMETRY PART A

Automated analysis of high‐content microscopy data with deep learning

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

High-content screening identifies kinase inhibitors that overcome venetoclax resistance in activated CLL cells

(2016) Sina Oppermann et al.   BLOOD

CP-CHARM: segmentation-free image classification made accessible

(2016) Virginie Uhlmann et al.   BMC BIOINFORMATICS

Evidence Implicating Immunological Host Effects in the Efficacy of Metronomic Low-Dose Chemotherapy

(2016) Y. Shaked et al.   CANCER RESEARCH

Axon Degeneration Gated by Retrograde Activation of Somatic Pro-apoptotic Signaling

(2016) David J. Simon et al.   CELL

Applications in image-based profiling of perturbations

(2016) Juan C Caicedo et al.   CURRENT OPINION IN BIOTECHNOLOGY

Microscopy-Based High-Content Screening

(2015) Michael Boutros et al.   CELL

Cell-Based Screening: Extracting Meaning from Complex Data

(2015) Steven Finkbeiner et al.   NEURON

NucleusJ: an ImageJ plugin for quantifying 3D images of interphase nuclei

(2014) Axel Poulet et al.   BIOINFORMATICS

Quantification of Dynamic Morphological Drug Responses in 3D Organotypic Cell Cultures by Automated Image Analysis

(2014) Ville Härmä et al.   PLoS One

Cancer heterogeneity: implications for targeted therapeutics

(2013) R Fisher et al.   BRITISH JOURNAL OF CANCER

MYC Phosphorylation at Novel Regulatory Regions Suppresses Transforming Activity

(2013) A. R. Wasylishen et al.   CANCER RESEARCH

Sugar for the brain: the role of glucose in physiological and pathological brain function

(2013) Philipp Mergenthaler et al.   TRENDS IN NEUROSCIENCES

Mutant p53: one name, many proteins

(2012) W. A. Freed-Pastor et al.   GENES & DEVELOPMENT

Outgrowth of single oncogene-expressing cells from suppressive epithelial environments

(2012) Cheuk T. Leung et al.   NATURE

PhenoRipper: software for rapidly profiling microscopy images

(2012) Satwik Rajaram et al.   NATURE METHODS

Biological imaging software tools

(2012) Kevin W Eliceiri et al.   NATURE METHODS

Mitochondrial hexokinase II (HKII) and phosphoprotein enriched in astrocytes (PEA15) form a molecular switch governing cellular fate depending on the metabolic state

(2012) P. Mergenthaler et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Epithelial Cell Organization Suppresses Myc Function by Attenuating Myc Expression

(2011) D. R. Simpson et al.   CANCER RESEARCH

A novel algorithm for optimal image thresholding of biological data

(2010) Krishnan Padmanabhan et al.   JOURNAL OF NEUROSCIENCE METHODS

V3D enables real-time 3D visualization and quantitative analysis of large-scale biological image data sets

(2010) Hanchuan Peng et al.   NATURE BIOTECHNOLOGY

Mitochondrial fragmentation and neuronal cell death in response to the Bcl-2/Bcl-xL/Bcl-w antagonist ABT-737

(2010) Kenneth W. Young et al.   NEUROPHARMACOLOGY

Pattern Recognition Software and Techniques for Biological Image Analysis

(2010) Lior Shamir et al.   PLoS Computational Biology

Expression, purification and use of recombinant annexin V for the detection of apoptotic cells

(2009) Susan E Logue et al.   Nature Protocols