Immunomics Research Core

免疫组学和表观基因组学核心

IMMUNOMICS AND EPIGENOMICS CORE PROJECT SUMMARY/ABSTRACT The Immunomics and Epigenomics Core (IEC) is an essential component of the overall program that will centralize the execution of a number of assays that will enable the characterization of immune responses. The overall proposal aims to understand epigenetic changes in patients infected by methicillin-resistant Staphylococcus aureus (MRSA) or Candida albicans Candidemia (CAC) and the immunologic functions shaping antibiotic-persistent from resolving outcomes. The IEC Core will provide skilled technical and scientific expertise to enable the PIs to achieve their research goals by carrying out the following assays. We will characterize the genetics and epigenetics of MRSA and CAC isolated from patient samples from long reads. Using PacBio circular consensus sequences we will reconstruct the genomes of SA and Candida isolated derived from patient samples, derive genomes and epigenomes of these microbes and related the data to patient outcomes. We will profile transcriptomes and epigenomes from short read data. This will include the generation of whole genome bisulfite sequencing libraries in order to characterize the cell types and their abundance in blood and plasma DNA samples. Chromatin accessibility will be profiled using ATC-seq. Protein-DNA interaction will also be profiled using CUT&Run protocols. Finally, we will also characterize innate and adaptive immune responses in CAC and MRSA patient samples and the phenotype and function of PAMP-stimulated macrophages. The Core has validated standardized cell cultures, immunophenotyping panels, multiplex Luminex, ultrasensitive Simoa assay to support the research of the Projects. We will be responsible for performing these assays, interpreting the data and working with the Bioinformatic and Data Management (BDM) Core to transfer the data and the Computational (CPM) Core for further analysis.