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Showing 1–8 of 8 results
Advanced filters: Author: Erin Weisbart Clear advanced filters

  • Pycytominer is a user-friendly, open-source Python package that carries out key bioinformatics steps in image-based profiling.

    • Erik Serrano
    • Srinivas Niranj Chandrasekaran
    • Gregory P. Way
    Research
    Nature Methods
    Volume: 22, P: 677-680

  • An optical pooled cell profiling platform (PERISCOPE) based on Cell Painting and optical sequencing of molecular barcodes was used to develop the first unbiased genome-wide morphology-based perturbation atlas in human cells.

    • Meraj Ramezani
    • Erin Weisbart
    • James T. Neal
    ResearchOpen Access
    Nature Methods
    Volume: 22, P: 621-633

  • Characterizing how genetic variation impacts cell morphology can provide an important links between disease association and cellular function. Here the authors identified the morphological impacts of genomic variants by generating high-throughput morphological profiling and whole genome sequencing data on iPSCs from 297 donors.

    • Matthew Tegtmeyer
    • Jatin Arora
    • Soumya Raychaudhuri
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-12

  • This Resource presents the genetic subset of the 136,000 chemical and genetic perturbations tested by the Joint Undertaking for Morphological Profiling (JUMP) Cell Painting Consortium and associated analysis of phenotypic profiles.

    • Srinivas Niranj Chandrasekaran
    • Eric Alix
    • Anne E. Carpenter
    Research
    Nature Methods
    Volume: 22, P: 1742-1752

  • Cell segmentation is crucial in many image analysis pipelines. This analysis compares many tools on a multimodal cell segmentation benchmark. A Transformer-based model performed best in terms of performance and general applicability.

    • Jun Ma
    • Ronald Xie
    • Bo Wang
    Research
    Nature Methods
    Volume: 21, P: 1103-1113

  • We provide an updated protocol for image-based profiling with Cell Painting. A detailed procedure, with standardized conditions for the assay, is presented, along with a comprehensive description of parameters to be considered when optimizing the assay.

    • Beth A. Cimini
    • Srinivas Niranj Chandrasekaran
    • Anne E. Carpenter
    Protocols
    Nature Protocols
    Volume: 18, P: 1981-2013