To address this, we propose HIT (Hypergraph Interaction Transformer), a deep hypergraph representation learning model that identifies a gene's therapeutic potential, biomarker status, or lack of association with diseases. HIT uses hypergraph structures of genes, ontologies, diseases, and phenotypes, ...
transcriptomic, bioinformatic, and cytogenetic analyses to identify candidate genes in the so-calledC. capitata tslgenomic region that may be involved in the tsl phenotype [18]. This region is defined by thewpgene at its left border and theglucose-6-phosphate 1-dehydrogenasegene (also known asZw...
Article 26 September 2022 Mapping the functional network of human cancer through machine learning and pan-cancer proteogenomics Article 11 December 2024 Transformer for one stop interpretable cell type annotation Article Open access 14 January 2023 Introduction...
39, learn a representation of the data where each dimension of the latent space can be explained using a weighted combination of the input, such as gene expression. This interpretability comes at the cost of the model’s limited capacity (for example, only capturing linear relationships) to ...
The sequences are transformed into SMILES strings and then reshaped into molecular graphs, which are provided as inputs to a graph transformer model. (A) Training phase: the model fθ(·) is trained with a pair of ASOs (positive and negative instances) that share the same nucleotide ...
Transformer neural networkOrphan gene play an important role in the environmental stresses of many species and their identification is a critical step to understand biological functions. Moso bamboo has high ecological, economic and cultural value. Studies have shown that the growth of moso bamboo is...
DEEP learningGENE expressionTRANSFORMER modelsBREAST cancerHISTOPATHOLOGYSTATISTICAL correlationTumour heterogeneity in breast cancer poses challenges in predicting outcome and response to therapy. Spatial transcriptomics technologies may address these challenges, as they provide a wealth of information about gene ...
Pre-mRNA splicing is a key controller of human gene expression. Disturbances in splicing due to mutation lead to dysregulated protein expression and contribute to a substantial fraction of human disease. Several classes of splicing modulator compounds (S
We also observe the use of hybrid methods, as well as other approaches such as GNN, vision transformer etc. In addition, we investigate the capacity of deep learning to contribute to the interpretation of gene expression data that facilitates the prediction of breast cancer genes from the whole...