DeeP4med: deep learning for P4 medicine to predict normal and cancer transcriptome in multiple human tissues.
Roohallah Mahdi-EsferiziBehnaz Haji Molla HoseyniAmir MehrpanahYazdan GolzadeAli NajafiFatemeh ElahianAmin Zadeh ShiraziGuillermo A GomezShahram TahmasebianPublished in: BMC bioinformatics (2023)
Based on the idea of DeeP4med, by having the gene expression matrix of a normal tissue, we can predict its tumor gene expression matrix and, in this way, find effective genes in transforming a normal tissue into a tumor tissue. Results of Differentially Expressed Genes (DEGs) and enrichment analysis on the predicted matrices for 13 types of cancer showed a good correlation with the literature and biological databases. This led that by using the gene expression matrix, to train the model with features of each person in a normal and cancer state, this model could predict diagnosis based on gene expression data from healthy tissue and be used to identify possible therapeutic interventions for those patients.
Keyphrases
- gene expression
- papillary thyroid
- dna methylation
- genome wide
- deep learning
- squamous cell
- endothelial cells
- end stage renal disease
- newly diagnosed
- physical activity
- chronic kidney disease
- lymph node metastasis
- young adults
- electronic health record
- squamous cell carcinoma
- childhood cancer
- prognostic factors
- artificial intelligence
- transcription factor
- convolutional neural network
- induced pluripotent stem cells
- data analysis