Release AI-ready CM4AI functional genomics data with provenance graphs and rich metadata for research use as part of the NIH Bridge2AI Functional Genomics Grand Challenge.
Grantor
Grant Name
Grant Number
National Institutes of Health (NIH) - Bridge2AI Program
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Composition
What do the instances represent?
Data Type
Representation
Transcriptomic profiles from perturb-seq (single-cell RNA-seq under genetic perturbations)
Single-cell perturb-seq experiments in undifferentiated KOLF2.1J iPSCs
Proteomic/complexome measurements in KOLF2.1J iPSCs and iPSC-derived NPCs, neurons, and cardiomyocyt...
Size-exclusion chromatography mass spectrometry (SEC-MS) profiles
Cell imaging data from MDA-MB-468 breast cancer cells with and without chemotherapy (vorinostat, pac...
Immunofluorescence (IF) microscopy images
Description
RO-Crate
Description
Released 2025-03-20 (DC.date)
Dataset citation date referenced in description (2025-03-04)
Cell Maps for Artificial Intelligence - March 2025 Data Release (Beta)
Cell Maps for Artificial Intelligence - March 2025 Data Release (Beta)
This dataset is the March 2025 Data Release of Cell Maps for Artificial Intelligence (CM4AI; CM4AI.org), the Functional Genomics Grand Challenge in the NIH Bridge2AI program. This Beta release includes perturb-seq data in undifferentiated KOLF2.1J iPSCs; SEC-MS data in undifferentiated KOLF2.1J iPSCs and iPSC-derived NPCs, neurons, and cardiomyocytes; and IF images in MDA-MB-468 breast cancer cells in the presence and absence of chemotherapy (vorinostat and paclitaxel). CM4AI output data are packaged with provenance graphs and rich metadata as AI-ready datasets in RO-Crate format using the FAIRSCAPE framework. Data presented here will be augmented regularly through the end of the project. CM4AI is a collaboration of UCSD, UCSF, Stanford, UVA, Yale, UA Birmingham, Simon Fraser University, and the Hastings Center. This data is Copyright (c) 2025 The Regents of the University of California except where otherwise noted. Spatial proteomics raw image data is copyright (c) 2025 The Board of Trustees of the Leland Stanford Junior University. Dataset licensed for reuse under Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International license (https://creativecommons.org/licenses/by-nc-sa/4.0/). Attribution is required to the copyright holders and the authors. Any publications referencing this data or derived products should cite the Related Publication below, as well as directly citing this data collection (2025-03-04).
Experimental data collection including single-cell perturb-seq, SEC-MS proteomics, and immunofluorescence microscopy across specified cell types and treatment conditions.
Description
Experimental measurements acquired via laboratory assays (sequencing, mass spectrometry, fluorescence microscopy).
Was Directly Observed
True
Was Reported By Subjects
False
Was Inferred Derived
False
Description
Packaged with provenance graphs and rich metadata as RO-Crate using the FAIRSCAPE framework to enable AI-ready use.
Description
Spatial proteomics raw image data are included (copyright (c) 2025 The Board of Trustees of the Leland Stanford Junior University).
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Uses
What (other) tasks could the dataset be used for?
Description
Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0).
Attribution is required to the copyright holders and the authors.
Copyright (c) 2025 The Regents of the University of California except where otherwise noted.
Spatial proteomics raw image data copyright (c) 2025 The Board of Trustees of the Leland Stanford Junior University.