OneGenE’s main idea is to calculate the list of gene expansions for each gene in an organism by systematically running single-gene NES2RA expansions with fixed parameters.
The expansion of the human gene networks is based on the transcriptomic dataset provided by the FANTOM project. FANTOM5 gene expression data come from sequencing of RNA extracted from 1,816 samples of different human tissues and cell lines and contains expression profiles of 201,802 gene isoforms (transcripts). It thus contains plenty of information on human gene transcriptional profiles in different biological contexts that can be exploited for data mining for different purposes. To our best knowledge ours is the first attempt to infer genome-scale regulatory information from FANTOM5 data.
E. Blanzieri et al., "A Computing System for Discovering Causal Relationships Among Human Genes to Improve Drug Repositioning," in IEEE Transactions on Emerging Topics in Computing, vol. 9, no. 4, pp. 1667-1682, 1 Oct.-Dec. 2021, doi: 10.1109/TETC.2020.3031024.