Table 2.

Hyperparameters for neural networks training on gene expression data. All neural networks are fully connected, and decoders have an architecture symmetric to the encoders.

Hyperparameter	Value
Molecular Encoder	GRU; hidden size 128; 2 layers
Expression Encoder	IN(978)→256→OUT(128)
Difference Encoder	IN(129)→128→OUT(10 + 10)
Discriminator	IN→1024→512→OUT(1)
Batch Normalization	After each linear layer in encoders
Activation Function	LeakyReLU
Learning Rate	0.0003