# dataverse 10.18130 V3 B35XWX d4d

Datasheet for Dataset - Human Readable Format

🎯

## Motivation

Why was the dataset created?

Purposes

- Name
    CM4AI March 2025 data release purpose
  Response
    Release of AI-ready multimodal functional genomics data (perturb-seq, SEC-MS, and immunofluorescence imaging) packaged with provenance graphs and rich metadata using RO-Crate/FAIRSCAPE to support AI method development and research.

Funders

Grantor | Grant Name | Grant Number
--- | --- | ---
National Institutes of Health (NIH) — Bridge2AI program | Bridge2AI Functional Genomics Grand Challenge | -

📊

## Composition

What do the instances represent?

Instances

Data Type | Name | Representation
--- | --- | ---
Sequencing-derived data products; details provided within RO-Crate packages | perturb-seq in undifferentiated KOLF2.1J iPSCs | Single-cell perturb-seq experiment outputs
Proteomics mass spectrometry data products; details provided within RO-Crate packages | SEC-MS in KOLF2.1J iPSCs and derived cell types | Size-exclusion chromatography mass spectrometry (SEC-MS) measurements
Image data; conditions include presence/absence of vorinostat and paclitaxel | IF images in MDA-MB-468 cells +/- chemotherapy | Immunofluorescence microscopy images

Subpopulations

- Name
    Experimental cell populations
  Identification
    - Undifferentiated KOLF2.1J iPSCs
    - iPSC-derived NPCs
    - iPSC-derived neurons
    - iPSC-derived cardiomyocytes
    - Mda Mb 468 Breast Cancer Cells (with And Without Chemotherapy
        vorinostat, paclitaxel)

Distribution Formats

- Name
    Packaging and distribution formats
  Description
    - RO-Crate packaged datasets with provenance graphs and rich metadata
    - FAIRSCAPE framework used for packaging
    - Distributed via University of Virginia Dataverse

Distribution Dates

- Name
    Initial public release
  Description
    - 2025-03-20

🔍

## Collection Process

How was the data acquired?

ID *
doi:10.18130/V3/B35XWX
Name
Cell Maps for Artificial Intelligence - March 2025 Data Release (Beta)
Title
Cell Maps for Artificial Intelligence - March 2025 Data Release (Beta)
Description
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).
Page
https://dataverse.lib.virginia.edu/dataset.xhtml?persistentId=doi:10.18130/V3/B35XWX
Issued
2025-03-20
Language
en
Keywords

- Medicine, Health and Life Sciences
- CM4AI
- Cell Maps for Artificial Intelligence
- Bridge2AI
- Functional Genomics
- RO-Crate
- FAIRSCAPE
- perturb-seq
- SEC-MS
- immunofluorescence
- iPSC
- KOLF2.1J
- NPCs
- neurons
- cardiomyocytes
- MDA-MB-468
- vorinostat
- paclitaxel

Created By

- Clark T
- Parker J
- Al Manir S
- Axelsson U
- Ballllosero Navarro F
- Chinn B
- Churas CP
- Dailamy A
- Doctor Y
- Fall J
- Forget A
- Gao J
- Hansen JN
- Hu M
- Johannesson A
- Khaliq H
- Lee YH
- Lenkiewicz J
- Levinson MA
- Marquez C
- Metallo C
- Muralidharan M
- Nourreddine S
- Niestroy J
- Obernier K
- Pan E
- Polacco B
- Pratt D
- Qian G
- Schaffer L
- Sigaeva A
- Thaker S
- Zhang Y
- Bélisle-Pipon JC
- Brandt C
- Chen JY
- Ding Y
- Fodeh S
- Krogan N
- Lundberg E
- Mali P
- Payne-Foster P
- Ratcliffe S
- Ravitsky V
- Sali A
- Schulz W
- Ideker T

Collection Mechanisms

- Name
    Experimental collection mechanisms
  Description
    - Single-cell perturb-seq
    - Size-exclusion chromatography mass spectrometry (SEC-MS)
    - Immunofluorescence microscopy imaging

Ip Restrictions

Name
  Copyright and IP notes
Description
  - 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.

Maintainers

- Name
    Hosting and support
  Description
    - Hosted and distributed by University of Virginia Dataverse

Creators

Name
Clark T
Parker J
Al Manir S
Axelsson U
Ballllosero Navarro F
Chinn B
Churas CP
Dailamy A
Doctor Y
Fall J
Forget A
Gao J
Hansen JN
Hu M
Johannesson A
Khaliq H
Lee YH
Lenkiewicz J
Levinson MA
Marquez C
Metallo C
Muralidharan M
Nourreddine S
Niestroy J
Obernier K
Pan E
Polacco B
Pratt D
Qian G
Schaffer L
Sigaeva A
Thaker S
Zhang Y
Bélisle-Pipon JC
Brandt C
Chen JY
Ding Y
Fodeh S
Krogan N
Lundberg E
Mali P
Payne-Foster P
Ratcliffe S
Ravitsky V
Sali A
Schulz W
Ideker T

🚀

## Uses

What (other) tasks could the dataset be used for?

License And Use Terms

Name
  License and terms of use
Description
  - Creative Commons Attribution Noncommercial Sharealike 4.0 International (cc By Nc Sa 4.0)
      https://creativecommons.org/licenses/by-nc-sa/4.0/
  - Attribution required to the copyright holders and the authors.
  - Cite the related publication and this data collection when referencing this data or derived products.

📤

## Distribution

How will the dataset be distributed?

DOI
doi:10.18130/V3/B35XWX
License
https://creativecommons.org/licenses/by-nc-sa/4.0/
🔄

## Maintenance

How will the dataset be maintained?

Updates

Name
  Update plan
Description
  - Data presented here will be augmented regularly through the end of the project.

Version
Beta
Generated on 2025-11-09 10:17:35 using Bridge2AI Data Sheets Schema