A multi-omic analysis of MCF10A cells provides a resource for integrative assessment of ligand-mediated molecular and phenotypic responses.
Journal
Communications biology
ISSN: 2399-3642
Titre abrégé: Commun Biol
Pays: England
ID NLM: 101719179
Informations de publication
Date de publication:
07 10 2022
07 10 2022
Historique:
received:
05
08
2021
accepted:
12
09
2022
entrez:
7
10
2022
pubmed:
8
10
2022
medline:
12
10
2022
Statut:
epublish
Résumé
The phenotype of a cell and its underlying molecular state is strongly influenced by extracellular signals, including growth factors, hormones, and extracellular matrix proteins. While these signals are normally tightly controlled, their dysregulation leads to phenotypic and molecular states associated with diverse diseases. To develop a detailed understanding of the linkage between molecular and phenotypic changes, we generated a comprehensive dataset that catalogs the transcriptional, proteomic, epigenomic and phenotypic responses of MCF10A mammary epithelial cells after exposure to the ligands EGF, HGF, OSM, IFNG, TGFB and BMP2. Systematic assessment of the molecular and cellular phenotypes induced by these ligands comprise the LINCS Microenvironment (ME) perturbation dataset, which has been curated and made publicly available for community-wide analysis and development of novel computational methods ( synapse.org/LINCS_MCF10A ). In illustrative analyses, we demonstrate how this dataset can be used to discover functionally related molecular features linked to specific cellular phenotypes. Beyond these analyses, this dataset will serve as a resource for the broader scientific community to mine for biological insights, to compare signals carried across distinct molecular modalities, and to develop new computational methods for integrative data analysis.
Identifiants
pubmed: 36207580
doi: 10.1038/s42003-022-03975-9
pii: 10.1038/s42003-022-03975-9
pmc: PMC9546880
doi:
Substances chimiques
Extracellular Matrix Proteins
0
Ligands
0
Epidermal Growth Factor
62229-50-9
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
1066Subventions
Organisme : U.S. Department of Health & Human Services | National Institutes of Health (NIH)
ID : U54-HG008097
Organisme : NIGMS NIH HHS
ID : T32 GM087237
Pays : United States
Organisme : U.S. Department of Health & Human Services | National Institutes of Health (NIH)
ID : U54HL127624
Organisme : NHLBI NIH HHS
ID : U54 HL127365
Pays : United States
Organisme : U.S. Department of Health & Human Services | National Institutes of Health (NIH)
ID : U54-HG008100
Organisme : U.S. Department of Health & Human Services | National Institutes of Health (NIH)
ID : U54HL127366
Organisme : NHGRI NIH HHS
ID : U54 HG008098
Pays : United States
Organisme : U.S. Department of Health & Human Services | National Institutes of Health (NIH)
ID : U54NS091046
Informations de copyright
© 2022. The Author(s).
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