A uniform assessment of an effect of medicinal plants using a combination of RNA-seq experiments and text mining of biomedical bibliographies

Feranchuk Sergey
2020 Zenodo  
BACKGROUND An efficiency if herbal medicine is possibly underestimated due to confusions in a choice between multiple approaches and terminologies. The availability of RNA seq experiments together with a volume if scientific publications related to medicinal plants makes it possible to develop a framework for a uniform assess of an expected effect of medicinal plants on a particular disease. METHODS Text mining of biomedical bibliographies was used to associate medicinal plants with a
more » ... ts with a regulation of some genes in human genome. Publicly available RNA seq experiments were processed to determine changes in gene expression for some of human diseases. Grouping of genes and reduction of expression profiles within each group was used to bind changes in genes for a medicinal plant with an overall changes of expression in a state of a disease. RESULTS The tables of an expected effect are provided for above 500 medicinal plants applied to the processed series of RNA-seq experiments. A model of coronavirus infection is presented as a case study for possible interpretation of the provided estimates.
doi:10.5281/zenodo.3744878 fatcat:mhbfcgkf3bcitfzytalpt3zxda