Self-supervised deep learning encodes high-resolution features of protein subcellular localization

A deep generative model of 3D single-cell organization

(2022) Rory M. Donovan-Maiye et al.   PLoS Computational Biology

OpenCell: Endogenous tagging for the cartography of human cellular organization

(2022) Nathan H. Cho et al.   SCIENCE

Deepometry, a framework for applying supervised and weakly supervised deep learning to imaging cytometry

(2021) Minh Doan et al.   Nature Protocols

Cell states beyond transcriptomics: Integrating structural organization and gene expression in hiPSC-derived cardiomyocytes

(2021) Kaytlyn A. Gerbin et al.   Cell Systems

Image-based profiling for drug discovery: due for a machine-learning upgrade?

(2020) Srinivas Niranj Chandrasekaran et al.   NATURE REVIEWS DRUG DISCOVERY

UniProt: the universal protein knowledgebase in 2021

(2020) et al.   NUCLEIC ACIDS RESEARCH

Learning unsupervised feature representations for single cell microscopy images with paired cell inpainting

(2019) Alex X. Lu et al.   PLoS Computational Biology

Analysis of the Human Protein Atlas Image Classification competition

(2019) Wei Ouyang et al.   NATURE METHODS

Proteomics reveals novel protein associations with early endosomes in an epidermal growth factor–dependent manner

(2018) Julie A. Gosney et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Experimental and computational framework for a dynamic protein atlas of human cell division

(2018) Yin Cai et al.   NATURE

CORUM: the comprehensive resource of mammalian protein complexes—2019

(2018) Madalina Giurgiu et al.   NUCLEIC ACIDS RESEARCH

Automated analysis of high‐content microscopy data with deep learning

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

Data-analysis strategies for image-based cell profiling

(2017) Juan C Caicedo et al.   NATURE METHODS

Reconstructing cell cycle and disease progression using deep learning

(2017) Philipp Eulenberg et al.   Nature Communications

Cell Painting, a high-content image-based assay for morphological profiling using multiplexed fluorescent dyes

(2016) Mark-Anthony Bray et al.   Nature Protocols

A scalable strategy for high-throughput GFP tagging of endogenous human proteins

(2016) Manuel D. Leonetti et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Label-free cell cycle analysis for high-throughput imaging flow cytometry

(2016) Thomas Blasi et al.   Nature Communications

Microscopy-Based High-Content Screening

(2015) Michael Boutros et al.   CELL

Deep learning

(2015) Yann LeCun et al.   NATURE

Cross-talk between Rho and Rac GTPases drives deterministic exploration of cellular shape space and morphological heterogeneity

(2014) H. Sailem et al.   Open Biology

A screen for morphological complexity identifies regulators of switch-like transitions between discrete cell shapes

(2013) Zheng Yin et al.   NATURE CELL BIOLOGY

The proteome of lysosomes

(2010) Bernd A. Schröder et al.   PROTEOMICS

The Unreasonable Effectiveness of Data

(2009) Alon Halevy et al.   IEEE INTELLIGENT SYSTEMS

Learning long-range vision for autonomous off-road driving

(2009) Raia Hadsell et al.   Journal of Field Robotics

Scoring diverse cellular morphologies in image-based screens with iterative feedback and machine learning

(2009) Thouis R. Jones et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA