ArticleScientific data2023
Cross-platform dataset of multiplex fluorescent cellular object image annotations.
Article in Scientific data, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers, 1 of them a synthesis that pooled it.
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Who cites it
14 citing papers in PubMed, 1 synthesis or guideline pooled it, 13 citations in OpenAlex.
- Society for Immunotherapy of Cancer: updates and best practices for multiplex immunohistochemistry (IHC) and immunofluorescence (IF) image analysis and data sharing.Journal for immunotherapy of cancer · 2025Guideline
- Single-cell analysis highlights the significance of malignant cell IFN/MHC-II for immunotherapy response in head and neck squamous cell carcinoma.Cell reports. Medicine · 2026Article
- Robust analysis of the tumor spectrum in a preclinical model of breast cancer reveals stable subtypes with distinct growth patterns.Computer methods and programs in biomedicine · 2026Article
- A toolkit for generating virtual brightfield images of histological and immunohistochemical stains from multiplexed data with AI-based channel selection and image enhancement.Frontiers in bioinformatics · 2026Article
- ImPartial: Multi-channel Whole-Cell Segmentation using Partial Annotations.Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention · 2026Article
- Generalized cell phenotyping for spatial proteomics with language-informed vision models.bioRxiv : the preprint server for biology · 2025Article
- Local mean suppression filter for effective background identification in fluorescence images.Computers in biology and medicine · 2025Article
- Quantitative benchmarking of nuclear segmentation algorithms in multiplexed immunofluorescence imaging for translational studies.Communications biology · 2025Article
- Robust consensus nuclear and cell segmentation.Frontiers in genetics · 2025Article
- Get to know your neighbors with a SNAQ™: A framework for single cell spatial neighborhood analysis in immunohistochemical images.Computational and structural biotechnology journal · 2024Article
- UNSEG: unsupervised segmentation of cells and their nuclei in complex tissue samples.Communications biology · 2024Article
- Get to know your neighbors with a SNAQbioRxiv : the preprint server for biology · 2024Article
- UNSEG: unsupervised segmentation of cells and their nuclei in complex tissue samples.bioRxiv : the preprint server for biology · 2024Article
- Cross-platform dataset of multiplex fluorescent cellular object image annotations.Scientific data · 2023Article
Corrections and comments
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Authors and funding
9 authors at 1 institution in 2 countries.
Funding
Abstract
Defining cellular and subcellular structures in images, referred to as cell segmentation, is an outstanding obstacle to scalable single-cell analysis of multiplex imaging data. While advances in machine learning-based segmentation have led to potentially robust solutions, such algorithms typically rely on large amounts of example annotations, known as training data. Datasets consisting of annotations which are thoroughly assessed for quality are rarely released to the public. As a result, there is a lack of widely available, annotated data suitable for benchmarking and algorithm development. To address this unmet need, we release 105,774 primarily oncological cellular annotations concentrating on tumor and immune cells using over 40 antibody markers spanning three fluorescent imaging platforms, over a dozen tissue types and across various cellular morphologies. We use readily available annotation techniques to provide a modifiable community data set with the goal of advancing cellular segmentation for the greater imaging community.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.