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Cell states beyond transcriptomics: Integrating structural organization and gene expression in hiPSC-derived cardiomyocytes
- Source :
- Cell systems. 12(6)
- Publication Year :
- 2020
-
Abstract
- Although some cell types may be defined anatomically or by physiological function, a rigorous definition of cell state remains elusive. Here, we develop a quantitative, imaging-based platform for the systematic and automated classification of subcellular organization in single cells. We use this platform to quantify subcellular organization and gene expression in >30,000 individual human induced pluripotent stem cell-derived cardiomyocytes, producing a publicly available dataset that describes the population distributions of local and global sarcomere organization, mRNA abundance, and correlations between these traits. While the mRNA abundance of some phenotypically important genes correlates with subcellular organization (e.g., the beta-myosin heavy chain, MYH7), these two cellular metrics are heterogeneous and often uncorrelated, which suggests that gene expression alone is not sufficient to classify cell states. Instead, we posit that cell state should be defined by observing full distributions of quantitative, multidimensional traits in single cells that also account for space, time, and function.
- Subjects :
- 0303 health sciences
Cell type
Histology
Induced Pluripotent Stem Cells
Cell Differentiation
Cell Biology
Computational biology
Biology
Pathology and Forensic Medicine
Transcriptome
03 medical and health sciences
0302 clinical medicine
Gene expression
Humans
Myocytes, Cardiac
Sarcomere organization
Stem cell
Induced pluripotent stem cell
Gene
030217 neurology & neurosurgery
Function (biology)
030304 developmental biology
Subjects
Details
- ISSN :
- 24054720
- Volume :
- 12
- Issue :
- 6
- Database :
- OpenAIRE
- Journal :
- Cell systems
- Accession number :
- edsair.doi.dedup.....38acfcd6fa500b96ee66a4ee9154b335