GOplot的GOcluster图
简介
该图使用圆形聚类形式展示富集结果,外圈是每个基因所在的GO term堆叠柱状图,中圈为log2FC值,内圈为cluster。注意:1,结果中所有基因均转成大写了;2,最多绘制18个GO term。3,结果中z-score(不是常规的统计z-score,仅给一个term是更可能降低(负值)或升高(正值)的暗示,计算方法:(up基因数-down基因数)/sqrt(基因数),例如positive regulation of cytokine production的Zscore = (5-8)/sqrt(13)=-0.83。参考R包:GOplot
数据说明
输入数据包括2个。第一个是富集结果,包括5列:GO id,GO term描述,分类,genes,adj_pval(此列未用在图中,但需要有);第二个是每个基因及基因的log2fc。两个数据必需保持一致(第二个可以输入全部的基因,程序会根据第一个输入的基因自动挑选)。
论文例子
The establishment of a prognostic scoring model based on the new tumor immune microenvironment classification in acute myeloid leukemia. Fig3 C
如何引用?
建议直接写网址。4800+篇
google学术,3900+篇
知网学术
正式引用:Tang D, Chen M, Huang X, Zhang G, Zeng L, Zhang G, Wu S, Wang Y.
SRplot: A free online platform for data visualization and graphing. PLoS One. 2023 Nov 9;18(11):e0294236. doi: 10.1371/journal.pone.0294236. PMID: 37943830.
方法章节:Heatmap was plotted by https://www.bioinformatics.com.cn (last accessed on 10 Dec 2024), an online platform for data analysis and visualization.
致谢章节:We thank Mingjie Chen (Shanghai NewCore Biotechnology Co., Ltd.) for providing data analysis and visualization support.