dataverse 10.18130 V3 F3TD5R d4d

This dataset is the June 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, iPSC-derived NPCs, neurons, cardiomyocytes, and treated and untreated MDA-MB-468 breast cancer cells; and IF images in MDA-MB-468 breast cancer cells in the presence and absence of chemotherapy (vorinostat and paclitaxel). External Data Links - Sequence Read Archive (SRA) Data: NCBI BioProject - Mass Spectrometry Data (Human iPSCs): MassIVE Repository - Mass Spectrometry Data (Human Cancer Cells): MassIVE Repository Data Governance & Ethics - Human Subjects: No - De-identified Samples: Yes - FDA Regulated: No - Data Governance Committee: Jillian Parker (jillianparker@health.ucsd.edu) - Ethical Review: Vardit Ravitsky (ravitskyv@thehastingscenter.org) and Jean-Christophe Belisle-Pipon (jean-christophe_belisle-pipon@sfu.ca) Completeness - Some datasets are under temporary pre-publication embargo - Protein-protein interaction (SEC-MS), protein localization (IF imaging), and CRISPRi perturb-seq data interrogate sets of proteins which incompletely overlap - Computed cell maps not included in this release Maintenance Plan - Dataset will be regularly updated and augmented through the end of the project in November 2026 - Updates on a quarterly basis - Long term preservation in the University of Virginia Dataverse, supported by committed institutional funds Intended Use - AI-ready datasets to support research in functional genomics - AI model training - Cellular process analysis - Cell architectural changes and interactions in presence of specific disease processes, treatment conditions, or genetic perturbations Limitations - This is an interim release - Does not contain predicted cell maps, which will be added in future releases - The current release is most suitable for bioinformatics analysis of the individual datasets - Requires domain expertise for meaningful analysis Prohibited Uses - These laboratory data are not to be used in clinical decision-making or in any context involving patient care without appropriate regulatory oversight and approval Potential Sources of Bias - Data in this release was derived from commercially available de-identified human cell lines - Does not represent all biological variants which may be seen in the population at large