Human Reference Atlas Literature (HRAlit) Database

The Human Reference Atlas literature (HRAlit) database, with 23 tables with 21,703,812 records including 7 junction tables with 13,042,188 relationships and a total size of 1.56 GB, is available in SQL format together with tables in CSV format. The database links the 295 digital objects of the HRA (versions 1.0 to 1.4) to publication, funding, and experimental data. Specifically, HRAlit includes 7,103,180 PubMed publications retrieved by a query for all 31 organs plus papers published in HRA, CZ CELLxGENE, GTEx, and CellMarker that are linked to 583,117 experts from 26,235 (cleaned) institutions and 896,680 funded projects by 6,427 (cleaned) funders. HRAlit also links the HRA to 1,816 experimental datasets and their 4,639 donors. The anatomical structures, cell types, and biomarkers in the 5th HRA release link to 5,049 ontology terms and IDs. HRAlit can be used to identify leading experts, major papers, funding trends, or alignment with existing ontologies in support of systematic HRA construction and usage. All data and code is at https://github.com/cns-iu/hra-literature. <br>人类参考图谱文献库（Human Reference Atlas literature，简称HRAlit）数据库包含23张数据表，共计21,703,812条记录，其中涵盖7张联结表（junction table），涉及13,042,188条关联关系，总数据量达1.56 GB，同时提供SQL格式与CSV格式的数据表文件。该数据库将人类参考图谱（Human Reference Atlas，简称HRA）的295个数字对象（版本1.0至1.4）与文献、资助及实验数据进行关联。具体而言，HRAlit收录了通过针对全部31个器官的检索策略获取的7,103,180条PubMed文献，以及发表于HRA、CZ CELLxGENE、基因型组织表达数据库（Genotype-Tissue Expression，GTEx）和细胞标记基因数据库（CellMarker）的相关论文；这些文献关联了来自26,235家已清洗机构的583,117名专家，以及由6,427名已清洗资助者资助的896,680个项目。HRAlit还将HRA与1,816个实验数据集及其对应的4,639名供体进行关联。HRA第5版中的解剖结构、细胞类型及生物标志物，共关联了5,049个本体术语与标识符。HRAlit可用于识别领域核心专家、高影响力论文、资助趋势，或验证与现有本体的匹配度，以支撑人类参考图谱的系统化构建与应用。所有数据与代码均可通过https://github.com/cns-iu/hra-literature获取。