In silico approach to calculate the transcript capacity
- Author:
Young Sup LEE
1
;
Kyung Hye WON
;
Jae Don OH
;
Donghyun SHIN
Author Information
- Publication Type:Original Article
- Keywords: fat; genome-wide association study; in silico method; transcript capacity; RNA-seq
- MeSH: Adipose Tissue; Computational Biology; Computer Simulation; Embryonic Development; Female; Gene Ontology; Genome-Wide Association Study; Humans; Methods; Pregnancy
- From:Genomics & Informatics 2019;17(3):e31-
- CountryRepublic of Korea
- Language:English
- Abstract: We sought the novel concept, transcript capacity (TC) and analyzed TC. Our approach to estimate TC was through an in silico method. TC refers to the capacity that a transcript exerts in a cell as enzyme or protein function after translation. We used the genome-wide association study (GWAS) beta effect and transcription level in RNA-sequencing to estimate TC. The trait was body fat percent and the transcript reads were obtained from the human protein atlas. The assumption was that the GWAS beta effect is the gene’s effect and TC was related to the corresponding gene effect and transcript reads. Further, we surveyed gene ontology (GO) in the highest TC and the lowest TC genes. The most frequent GOs with the highest TC were neuronal-related and cell projection organization related. The most frequent GOs with the lowest TC were wound-healing related and embryo development related. We expect that our analysis contributes to estimating TC in the diverse species and playing a benevolent role to the new bioinformatic analysis.
