|
| Status |
Public on Oct 25, 2017 |
| Title |
Whole transcriptome analysis of induced cardiomyocytes during direct cardiac reprogramming [expression] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by array
|
| Summary |
Direct lineage conversion offers a new strategy for tissue regeneration and disease modeling. Despite recent success in directly reprogramming fibroblasts into a wide spectrum of cell types, the precise changes that fibroblasts undergo as they progress to target cell fates remain unclear. The inherent heterogeneity and asynchronous nature of the reprogramming process make it difficult to study using bulk genomic techniques. Therefore, a fundamental and detailed understanding of global transcriptome changes at the single cell level is necessary to better optimize reprogramming for therapeutic purposes and to advance the understanding of cell plasticity and cell identity acquisition. Here, we applied single-cell RNA-seq to analyze global transcriptome changes at early stages of induced cardiomyocyte (iCM) reprogramming. Using unsupervised dimensionality reduction and clustering algorithms, we identified molecularly distinct subpopulations of cells along the reprogramming process from fibroblasts to iCMs, including a novel intermediate state that exhibited molecular signatures of both fibroblast and cardiomyocyte. In summary, our single cell transcriptomics approaches enabled us to construct a reprogramming trajectory and uncover the intermediate cell populations, regulatory pathways and genes putatively involved in iCM induction.
|
| |
|
| Overall design |
To compare with single-cell RNAseq of induced cardiomyocytes (iCM), we also performed whole-genome gene expression profiling with reprogramming cells collected at different time points (D0, D3, D5, D7, D10, and D14 post MGT transduction). Microarray was performed on Agilent mouse 8x60K GE 1color platform.
|
| |
|
| Contributor(s) |
Zhou Y, Wang L, Liu Z, Alimohamadi S, Yin C, Liu J, Qian L |
| Citation(s) |
29072293 |
| Submission date |
May 04, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Ziqing Liu |
| Organization name |
UNC-Chapel Hill
|
| Department |
Biology
|
| Lab |
Victoria Bautch
|
| Street address |
416 Fordham Hall, University of North Carolina
|
| City |
Chapel Hill |
| State/province |
NC |
| ZIP/Postal code |
27514 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL13912 |
Agilent-028005 SurePrint G3 Mouse GE 8x60K Microarray (Feature Number version) |
|
| Samples (22)
|
|
| This SubSeries is part of SuperSeries: |
| GSE98571 |
Analysis of induced cardiomyocytes during direct cardiac reprogramming |
|
| Relations |
| BioProject |
PRJNA385604 |
Less...
More...