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

SN Chandrasekaran, H Ceulemans, JD Boyd… - Nature Reviews Drug …, 2021 - nature.com
Image-based profiling is a maturing strategy by which the rich information present in
biological images is reduced to a multidimensional profile, a collection of extracted image …

Optimizing the Cell Painting assay for image-based profiling

BA Cimini, SN Chandrasekaran, M Kost-Alimova… - Nature protocols, 2023 - nature.com
In image-based profiling, software extracts thousands of morphological features of cells from
multi-channel fluorescence microscopy images, yielding single-cell profiles that can be used …

[HTML][HTML] A next generation connectivity map: L1000 platform and the first 1,000,000 profiles

A Subramanian, R Narayan, SM Corsello, DD Peck… - Cell, 2017 - cell.com
We previously piloted the concept of a Connectivity Map (CMap), whereby genes, drugs,
and disease states are connected by virtue of common gene-expression signatures. Here …

[HTML][HTML] Opportunities and challenges in phenotypic drug discovery: an industry perspective

JG Moffat, F Vincent, JA Lee, J Eder… - Nature reviews Drug …, 2017 - nature.com
Phenotypic drug discovery (PDD) approaches do not rely on knowledge of the identity of a
specific drug target or a hypothesis about its role in disease, in contrast to the target-based …

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

MA Bray, S Singh, H Han, CT Davis, B Borgeson… - Nature protocols, 2016 - nature.com
In morphological profiling, quantitative data are extracted from microscopy images of cells to
identify biologically relevant similarities and differences among samples based on these …

High-throughput methods in the discovery and study of biomaterials and materiobiology

L Yang, S Pijuan-Galito, HS Rho, AS Vasilevich… - Chemical …, 2021 - ACS Publications
The complex interaction of cells with biomaterials (ie, materiobiology) plays an increasingly
pivotal role in the development of novel implants, biomedical devices, and tissue …

Harnessing connectivity in a large-scale small-molecule sensitivity dataset

B Seashore-Ludlow, MG Rees, JH Cheah, M Cokol… - Cancer discovery, 2015 - AACR
Identifying genetic alterations that prime a cancer cell to respond to a particular therapeutic
agent can facilitate the development of precision cancer medicines. Cancer cell-line (CCL) …

[HTML][HTML] Learning representations for image-based profiling of perturbations

N Moshkov, M Bornholdt, S Benoit, M Smith… - Nature …, 2024 - nature.com
Measuring the phenotypic effect of treatments on cells through imaging assays is an efficient
and powerful way of studying cell biology, and requires computational methods for …

[HTML][HTML] Mass cytometry imaging for the study of human diseases—applications and data analysis strategies

H Baharlou, NP Canete, AL Cunningham… - Frontiers in …, 2019 - frontiersin.org
High parameter imaging is an important tool in the life sciences for both discovery and
healthcare applications. Imaging Mass Cytometry (IMC) and Multiplexed Ion Beam Imaging …

[HTML][HTML] Image Data Resource: a bioimage data integration and publication platform

E Williams, J Moore, SW Li, G Rustici, A Tarkowska… - Nature …, 2017 - nature.com
Access to primary research data is vital for the advancement of science. To extend the data
types supported by community repositories, we built a prototype Image Data Resource …