Core C - Bioinformatics Core

ABSTRACT (Core C) Bioinformatics Core Core C: The Bioinformatics Core, will provide bioinformatics analyses of Next-generation sequence (NGS) data such as bulk RNA-seq, single cell RNA-seq, ChIP-seq, ATAC-seq, as well as proteomics and metabolomics analyses. Core C will also integrate the newly generated experimental data with public available datasets, use the state-of-the-art computational models to investigate the combined data and provide a platform for the generation of new hypotheses of novel genes and pathways for promoting cardiomyocyte proliferation and cardiac regeneration. Core C will help each project to design their NGS / proteomics / metabolomics experiments, and discuss the analysis, interpret the experimental results and provide new data which will serve as a platform for hypotheses and future experiments. These services are best centralized given their inherent difficulty, their reliance on sophisticated analysis skills and expertise, and requirement of consistency and reproducibility. There are two specific aims (SAs) for studies that will be pursued in Core C: SA 1: To organize and analyze computational datasets from transcriptional and proteomic studies performed by the respective projects and integrate them with existing publicly available datasets. SA 2: To develop new algorithms that will facilitate the discovery of novel genes and factors that will impact cardiomyocyte proliferation and remuscularization. These aims will make the bioinformatics analysis easy to reproduce, accessible and interpretable to each project led team and produce high-quality and in-depth analysis for large-scale NGS, proteomics and metabolomics data. Core C personnel are well-trained in all aspects of the services to be provided, as we have collaborated on bioinformatics projects over the past ten year period at UMN and as members of programmatic projects. All of the required equipment and resources are in place for the proposed projects.