siGCD: a web server to explore survival interaction of genes, cells and drugs in human cancers

Cui，Xiu Liang1; Han，Lu2,3; Liu，Yang4; Li，Ying5; Sun，Wen1; Song，Bin6; Zhou，Wenxia2,3; Zhang，Yongxiang2,3; Wang，Hongyang1,7

2021-09-02

10.1093/bib/bbab058

Briefings in bioinformatics   影响因子和分区

1477-4054

It is pivotal and remains challenge for cancer precision treatment to identify the survival outcome interactions between genes, cells and drugs. Here, we present siGCD, a web-based tool for analysis and visualization of the survival interaction of Genes, Cells and Drugs in human cancers. siGCD utilizes the cancer heterogeneity to simulate the manipulated gene expression, cell infiltration and drug treatment, which overcomes the data and experimental limitations. To illustrate the performance of siGCD, we identified the survival interaction partners of EGFR (gene level), T cells (cell level) and sorafenib (drug level), and our prediction was consistent with previous reports. Moreover, we validate the synergistic effect of regorafenib and glyburide, and found that glyburide could significantly improve the regorafenib response. These results demonstrate that siGCD could benefit cancer precision medicine in a wide range of advantageous application scenarios including gene regulatory network construction, immune cell regulatory gene identification, drug (especially multiple target drugs) response biomarker screening and combination therapeutic design.

biomarker drug combination immune cell survival interaction

SCI

英语

其他

WOS:000709461800090

COMPUTER SCIENCE

2-s2.0-85116172877

Scopus

1.National Center for Liver Cancer,Second Military Medical University,200438,China
2.Beijing Institute of Pharmacology and Toxicology,100850,China
3.State Key Laboratory of Toxicology and Medical Countermeasures,Beijing China,
4.Institute for Hepatology,Second Affiliated Hospital,South University of Science and Technology,Shenzhen,29 Bulan Road ,Longgang District,518112,China
5.Department of Pharmacy,Eastern Hepatobiliary Surgery Hospital,Second Military Medical University,200438,China
6.Department of Pancreatic Surgery,Changhai Hospital,Second Military Medical University,200438,China
7.International Cooperation Laboratory on Signal Transduction,Eastern Hepatobiliary Surgery Hospital/Institute,Second Military Medical University,200438,China

Cui，Xiu Liang,Han，Lu,Liu，Yang,et al. siGCD: a web server to explore survival interaction of genes, cells and drugs in human cancers[J]. Briefings in bioinformatics,2021,22(5).

Cui，Xiu Liang.,Han，Lu.,Liu，Yang.,Li，Ying.,Sun，Wen.,...&Wang，Hongyang.(2021).siGCD: a web server to explore survival interaction of genes, cells and drugs in human cancers.Briefings in bioinformatics,22(5).

Cui，Xiu Liang,et al."siGCD: a web server to explore survival interaction of genes, cells and drugs in human cancers".Briefings in bioinformatics 22.5(2021).