Single-cell transcriptional landscape of long non-coding RNAs orchestrating mouse heart development.
Thaís A R RamosSebastián Urquiza-ZurichSoo Young KimThomas G GilletteJoseph A HillSergio LavanderoThaís G do RêgoVinicius Maracaja-CoutinhoPublished in: Cell death & disease (2023)
Long non-coding RNAs (lncRNAs) comprise the most representative transcriptional units of the mammalian genome. They are associated with organ development linked with the emergence of cardiovascular diseases. We used bioinformatic approaches, machine learning algorithms, systems biology analyses, and statistical techniques to define co-expression modules linked to heart development and cardiovascular diseases. We also uncovered differentially expressed transcripts in subpopulations of cardiomyocytes. Finally, from this work, we were able to identify eight cardiac cell-types; several new coding, lncRNA, and pcRNA markers; two cardiomyocyte subpopulations at four different time points (ventricle E9.5, left ventricle E11.5, right ventricle E14.5 and left atrium P0) that harbored co-expressed gene modules enriched in mitochondrial, heart development and cardiovascular diseases. Our results evidence the role of particular lncRNAs in heart development and highlight the usage of co-expression modular approaches in the cell-type functional definition.
Keyphrases
- long non coding rna
- poor prognosis
- cardiovascular disease
- machine learning
- single cell
- heart failure
- pulmonary artery
- pulmonary hypertension
- gene expression
- type diabetes
- stem cells
- oxidative stress
- atrial fibrillation
- transcription factor
- mitral valve
- coronary artery
- genome wide
- deep learning
- network analysis
- mesenchymal stem cells
- cardiovascular risk factors
- pulmonary arterial hypertension
- binding protein
- left atrial appendage