Abstract
Motivation Gene expression profiling was made cheaper by the NIH LINCS program that profiles only ~1, 000 selected landmark genes and uses them to reconstruct the whole profile. The D–GEX method employs neural networks to infer the whole profile. However, the original D–GEX can be further significantly improved.
Results We have analyzed the D–GEX method and determined that the inference can be improved using a logistic sigmoid activation function instead of the hyperbolic tangent. Moreover, we propose a novel transformative adaptive activation function that improves the gene expression inference even further and which generalizes several existing adaptive activation functions. Our improved neural network achieves average mean absolute error of 0.1340 which is a significant improvement over our reimplementation of the original D–GEX which achieves average mean absolute error 0.1637
