ArticleFrontiers in genetics2017
Cell Cycle and Cell Size Dependent Gene Expression Reveals Distinct Subpopulations at Single-Cell Level.
Article in Frontiers in genetics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed.
- Computational decoding of cell-cycle phase effects on cancer hallmarks across breast cancer subtypes.Breast cancer research : BCR · 2025Article
- Innovative data augmentation strategy for deep learning on biological datasets with limited gene representations focused on chloroplast genomes.Scientific reports · 2025Article
- Decoupled transcript and protein concentrations ensure histone homeostasis in different nutrients.The EMBO journal · 2024Article
- Fluorescence tracking demonstrates T cell recirculation is transiently impaired by radiation therapy to the tumor.Scientific reports · 2024Article
- Article
- Concentration fluctuations in growing and dividing cells: Insights into the emergence of concentration homeostasis.PLoS computational biology · 2022Article
- Rearrangement of T Cell genome architecture regulates GVHD.iScience · 2022Article
- Single-Cell RNA Sequencing Reveals Endothelial Cell Transcriptome Heterogeneity Under Homeostatic Laminar Flow.Arteriosclerosis, thrombosis, and vascular biology · 2021Article
- Mammary cell gene expression atlas links epithelial cell remodeling events to breast carcinogenesis.Communications biology · 2021Article
- A Small Fraction of Progenitors Differentiate Into Mature Adipocytes by Escaping the Constraints on the Cell Structure.Frontiers in cell and developmental biology · 2021Article
- Mambalgin-2 Induces Cell Cycle Arrest and Apoptosis in Glioma Cells via Interaction with ASIC1a.Cancers · 2020Article
- Article
- The Effect of 3'-Hydroxy-3,4,5,4'-Tetramethoxy -stilbene, the Metabolite of the Resveratrol Analogue DMU-212, on the Motility and Proliferation of Ovarian Cancer Cells.International journal of molecular sciences · 2020Article
- JAK-STAT signalling controls cancer stem cell properties including chemotherapy resistance in myxoid liposarcoma.International journal of cancer · 2019Article
- Aldehyde dehydrogenase activity of Wharton jelly mesenchymal stromal cells: isolation and characterization.Cytotechnology · 2019Article
- Identification of Breast Cancer Stem Cell Related Genes Using Functional Cellular Assays Combined With Single-Cell RNA Sequencing in MDA-MB-231 Cells.Frontiers in genetics · 2019Article
- Cell Size-Based Decision-Making of a Viral Gene Circuit.Cell reports · 2018Article
- Aldehyde Dehydrogenase Activity in Adipose Tissue: Isolation and Gene Expression Profile of Distinct Sub-population of Mesenchymal Stromal Cells.Stem cell reviews and reports · 2018Article
- Identification of inhibitors regulating cell proliferation and FUS-DDIT3 expression in myxoid liposarcoma using combined DNA, mRNA, and protein analyses.Laboratory investigation; a journal of technical methods and pathology · 2018Article
- Foreskin-derived mesenchymal stromal cells with aldehyde dehydrogenase activity: isolation and gene profiling.BMC cell biology · 2018Article
Corrections and comments
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Authors and funding
9 authors.
Funding
Abstract
Cell proliferation includes a series of events that is tightly regulated by several checkpoints and layers of control mechanisms. Most studies have been performed on large cell populations, but detailed understanding of cell dynamics and heterogeneity requires single-cell analysis. Here, we used quantitative real-time PCR, profiling the expression of 93 genes in single-cells from three different cell lines. Individual unsynchronized cells from three different cell lines were collected in different cell cycle phases (G0/G1 - S - G2/M) with variable cell sizes. We found that the total transcript level per cell and the expression of most individual genes correlated with progression through the cell cycle, but not with cell size. By applying the random forests algorithm, a supervised machine learning approach, we show how a multi-gene signature that classifies individual cells into their correct cell cycle phase and cell size can be generated. To identify the most predictive genes we used a variable selection strategy. Detailed analysis of cell cycle predictive genes allowed us to define subpopulations with distinct gene expression profiles and to calculate a cell cycle index that illustrates the transition of cells between cell cycle phases. In conclusion, we provide useful experimental approaches and bioinformatics to identify informative and predictive genes at the single-cell level, which opens up new means to describe and understand cell proliferation and subpopulation dynamics.
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