Next Article in Journal
Metabolomics as a Tool to Elucidate the Sensory, Nutritional and Safety Quality of Wheat Bread—A Review
Previous Article in Journal
Radiotherapy of High-Grade Gliomas: First Half of 2021 Update with Special Reference to Radiosensitization Studies
Previous Article in Special Issue
Cigarette Smoke Specifically Affects Small Airway Epithelial Cell Populations and Triggers the Expansion of Inflammatory and Squamous Differentiation Associated Basal Cells
Article

ExpressHeart: Web Portal to Visualize Transcriptome Profiles of Non-Cardiomyocyte Cells

by 1,†, 2,†, 3,4, 3,4, 2, 5, 5, 3,4, 3,4, 2,6,7,* and 3,4,*
1
Department of Statistics and Operations Research, University of North Carolina, Chapel Hill, NC 27599, USA
2
Department of Biostatistics, University of North Carolina, Chapel Hill, NC 27599, USA
3
Department of Pathology and Laboratory Medicine, University of North Carolina, Chapel Hill, NC 27599, USA
4
McAllister Heart Institute, University of North Carolina, Chapel Hill, NC 27599, USA
5
Research Computing, University of North Carolina, Chapel Hill, NC 27599, USA
6
Department of Genetics, University of North Carolina, Chapel Hill, NC 27599, USA
7
Department of Computer Science, University of North Carolina, Chapel Hill, NC 27599, USA
*
Authors to whom correspondence should be addressed.
Equal contribution.
Academic Editor: Alessandra Rampazzo
Int. J. Mol. Sci. 2021, 22(16), 8943; https://doi.org/10.3390/ijms22168943
Received: 20 July 2021 / Revised: 6 August 2021 / Accepted: 17 August 2021 / Published: 19 August 2021
(This article belongs to the Special Issue Single Cell Omics)
Unveiling the molecular features in the heart is essential for the study of heart diseases. Non-cardiomyocytes (nonCMs) play critical roles in providing structural and mechanical support to the working myocardium. There is an increasing amount of single-cell RNA-sequencing (scRNA-seq) data characterizing the transcriptomic profiles of nonCM cells. However, no tool allows researchers to easily access the information. Thus, in this study, we develop an open-access web portal, ExpressHeart, to visualize scRNA-seq data of nonCMs from five laboratories encompassing three species. ExpressHeart enables comprehensive visualization of major cell types and subtypes in each study; visualizes gene expression in each cell type/subtype in various ways; and facilitates identifying cell-type-specific and species-specific marker genes. ExpressHeart also provides an interface to directly combine information across datasets, for example, generating lists of high confidence DEGs by taking the intersection across different datasets. Moreover, ExpressHeart performs comparisons across datasets. We show that some homolog genes (e.g., Mmp14 in mice and mmp14b in zebrafish) are expressed in different cell types between mice and zebrafish, suggesting different functions across species. We expect ExpressHeart to serve as a valuable portal for investigators, shedding light on the roles of genes on heart development in nonCM cells. View Full-Text
Keywords: non-cardiomyocytes; single-cell RNA-sequencing; expressheart; R Shiny; visualization; differentially expressed genes; cross-species comparison non-cardiomyocytes; single-cell RNA-sequencing; expressheart; R Shiny; visualization; differentially expressed genes; cross-species comparison
Show Figures

Figure 1

MDPI and ACS Style

Li, G.; Luan, C.; Dong, Y.; Xie, Y.; Zentz, S.C.; Zelt, R.; Roach, J.; Liu, J.; Qian, L.; Li, Y.; Yang, Y. ExpressHeart: Web Portal to Visualize Transcriptome Profiles of Non-Cardiomyocyte Cells. Int. J. Mol. Sci. 2021, 22, 8943. https://doi.org/10.3390/ijms22168943

AMA Style

Li G, Luan C, Dong Y, Xie Y, Zentz SC, Zelt R, Roach J, Liu J, Qian L, Li Y, Yang Y. ExpressHeart: Web Portal to Visualize Transcriptome Profiles of Non-Cardiomyocyte Cells. International Journal of Molecular Sciences. 2021; 22(16):8943. https://doi.org/10.3390/ijms22168943

Chicago/Turabian Style

Li, Gang, Changfei Luan, Yanhan Dong, Yifang Xie, Scott C. Zentz, Rob Zelt, Jeff Roach, Jiandong Liu, Li Qian, Yun Li, and Yuchen Yang. 2021. "ExpressHeart: Web Portal to Visualize Transcriptome Profiles of Non-Cardiomyocyte Cells" International Journal of Molecular Sciences 22, no. 16: 8943. https://doi.org/10.3390/ijms22168943

Find Other Styles
Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Article Access Map by Country/Region

1
Back to TopTop