Building a FAIR data ecosystem for incorporating single-cell transcriptomics data into agricultural genome to phenome research.

ABSTRACT:

Introduction

The agriculture genomics community has numerous data submission standards available, but the standards for describing and storing single-cell (SC, e.g., scRNA- seq) data are comparatively underdeveloped.

Methods

To bridge this gap, we leveraged recent advancements in human genomics infrastructure, such as the integration of the Human Cell Atlas Data Portal with Terra, a secure, scalable, open-source platform for biomedical researchers to access data, run analysis tools, and collaborate. In parallel, the Single Cell Expression Atlas at EMBL-EBI offers a comprehensive data ingestion portal for high-throughput sequencing datasets, including plants, protists, and animals (including humans). Developing data tools connecting these resources would offer significant adv

SUBMITTER: Kapoor M 

PROVIDER: S-EPMC11638175 | biostudies-literature | 2024

REPOSITORIES: biostudies-literature