Differential Regulatory Analysis Based on Coexpression Network in Cancer Research.
With rapid development of high-throughput techniques and accumulation of big transcriptomic data, plenty of computational methods and algorithms such as differential analysis and network analysis have been proposed to explore genome-wide gene expression characteristics. These efforts are aiming to transform underlying genomic information into valuable knowledges in biological and medical research fields. Recently, tremendous integrative research methods are dedicated to interpret the development and progress of neoplastic diseases, whereas differential regulatory analysis (DRA) based on gene coexpression network (GCN) increasingly plays a robust complement to regular differential expression analysis in revealing regulatory functions of cancer related genes such as evading growth suppressors and resisting cell death. Differential regulatory analysis based on GCN is prospective and shows its essential role in discovering the system properties of carcinogenesis features. Here we briefly review the paradigm of differential regulatory analysis based on GCN. We also focus on the applications of differential regulatory analysis based on GCN in cancer research and point out that DRA is necessary and extraordinary to reveal underlying molecular mechanism in large-scale carcinogenesis studies.
Key Lab of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China; Shanghai Center for Bioinformation Technology, 1278 Keyuan Road, Shanghai 201203, China.
Junyi
0000-0001-8045-5264
J
Li
Key Lab of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China; Shanghai Center for Bioinformation Technology, 1278 Keyuan Road, Shanghai 201203, China; Shanghai Industrial Technology Institute, 1278 Keyuan Road, Shanghai 201203, China; Shanghai Engineering Research Center of Pharmaceutical Translation, 1278 Keyuan Road, Shanghai 201203, China.
Yi-Xue
0000-0002-1198-7176
YX
Li
Shanghai Center for Bioinformation Technology, 1278 Keyuan Road, Shanghai 201203, China; Shanghai Industrial Technology Institute, 1278 Keyuan Road, Shanghai 201203, China; Shanghai Engineering Research Center of Pharmaceutical Translation, 1278 Keyuan Road, Shanghai 201203, China.
Yuan-Yuan
0000-0001-8755-4695
YY
Li
D063646:Carcinogenesis / Q000235:genetics; D020869:Gene Expression Profiling / Q000379:methods; D015972:Gene Expression Regulation, Neoplastic; D053263:Gene Regulatory Networks / Q000235:genetics*; D015894:Genome, Human; D006801:Humans; D009363:Neoplasm Proteins / Q000096:biosynthesis* / Q000235:genetics; D009369:Neoplasms / Q000235:genetics* / Q000473:pathology; D059467:Transcriptome / Q000235:genetics*
D009363:Neoplasm Proteins