Data Management and Analysis Core

项目总结

Project Summary The Data Management and Analysis Core (DMAC) will continue to provide centralized data management and analysis services for the LJI HIPC center projects and cores, as it has successfully done since the inception of the HIPC Program at LJI in 2015. Further, the DMAC will ensure the ongoing timely submission of data and data analyses obtained under this award to the ImmPort database and other repositories identified by NIAID. For centralized data management, we will utilize our in-house, data management system of interconnected databases and analysis scripts. This is centered around the Donor Record Administration System (DoRAS) for tracking donors and samples along with clinical information. Here we will extend DoRAS to ensure that all clinical information relevant to the present proposal can be captured. The database will be accessible through the internet and provide a consistent basis to select samples and interpret results. All information in DoRAS is de-identified, so that research projects will not have access to sensitive information, allowing data to be freely shared. In terms of data analysis services, the DMAC will build on the procedures established successfully in the last 6 years and provide a set of automated analysis pipelines that take data generated in each Project and provide standardized analyses that will facilitate inter-project comparisons and reproducibility. Pipelines for bulk RNA-seq have already been fully implemented including user friendly web reports for the generated results. Initial pipelines for single-cell- RNA-seq analysis have been established, and will continue to be optimized. For high-dimensional cytometry analysis as generated by flow or mass-cytometry, we will be using a combination of traditional manual gating approaches and directed automated gating methods, in particularly Directed Automated Filtering and Identification of cell populations (DAFI)1, which was developed in the previous funding period. Also, we will optimize and automate a TCR-seq analysis pipeline that will identify TCRs in various experimental settings. Power calculations will also be provided. To facilitate efficient data sharing with ImmPort, and to follow guidelines for data standards set by the newly introduced HIPC Coordinating Center (HCC), we will take advantage of the fact that the data generated through automated pipelines in this proposal is already in a standardized format, and ties back to the sample and human subject information captured in DoRAS. Updates to data standards are easily implemented in these pipelines, and will generate the desired export format for ImmPort, GEO or SRA. Additionally, DMAC will provide dedicated staff with experience in data submissions to ensure that study specific data elements not covered by the automated pipelines will be appropriately submitted. We have extensive experience and success with this approach, as evidenced by our track record of submissions in the last funding period.