Wang Pingzhang, Qi Huiying, Song Shibin, Li Shuang, Huang Ningyu, Han Wenling, Ma Dalong
Department of Immunology, Key Laboratory of Medical Immunology, Ministry of Health, School of Basic Medical Sciences, Peking University Health Science Center, No. 38 Xueyuan Road, Beijing 100191, China Peking University Center for Human Disease Genomics, No. 38 Xueyuan Road, Beijing 100191, China
Department of Natural Science in Medicine, Peking University Health Science Center, No. 38 Xueyuan Road, Beijing 100191, China.
Nucleic Acids Res. 2015 Jan;43(Database issue):D1133-9. doi: 10.1093/nar/gku980. Epub 2014 Oct 17.
Current gene co-expression databases and correlation networks do not support cell-specific analysis. Gene co-expression and expression correlation are subtly different phenomena, although both are likely to be functionally significant. Here, we report a new database, ImmuCo (http://immuco.bjmu.edu.cn), which is a cell-specific database that contains information about gene co-expression in immune cells, identifying co-expression and correlation between any two genes. The strength of co-expression of queried genes is indicated by signal values and detection calls, whereas expression correlation and strength are reflected by Pearson correlation coefficients. A scatter plot of the signal values is provided to directly illustrate the extent of co-expression and correlation. In addition, the database allows the analysis of cell-specific gene expression profile across multiple experimental conditions and can generate a list of genes that are highly correlated with the queried genes. Currently, the database covers 18 human cell groups and 10 mouse cell groups, including 20,283 human genes and 20,963 mouse genes. More than 8.6 × 10(8) and 7.4 × 10(8) probe set combinations are provided for querying each human and mouse cell group, respectively. Sample applications support the distinctive advantages of the database.
当前的基因共表达数据库和相关网络不支持细胞特异性分析。基因共表达和表达相关性是略有不同的现象，尽管两者可能都具有功能上的重要性。在此，我们报告一个新的数据库ImmuCo（http://immuco.bjmu.edu.cn），它是一个细胞特异性数据库，包含免疫细胞中基因共表达的信息，可识别任意两个基因之间的共表达和相关性。查询基因的共表达强度由信号值和检测调用表示，而表达相关性和强度则由皮尔逊相关系数反映。提供信号值的散点图以直接说明共表达和相关性的程度。此外，该数据库允许分析多种实验条件下的细胞特异性基因表达谱，并可生成与查询基因高度相关的基因列表。目前，该数据库涵盖18个人类细胞组和10个小鼠细胞组，包括20283个人类基因和20963个小鼠基因。分别为查询每个人类和小鼠细胞组提供了超过8.6×10⁸和7.4×10⁸个探针集组合。样本应用支持该数据库的独特优势。
