EIEPCF: accurate inference of functional gene regulatory networks by eliminating indirect effects from confounding factors.

Reconstructing functional gene regulatory networks (GRNs) is a primary prerequisite for understanding pathogenic mechanisms and curing diseases in animals, and it also provides an important foundation for cultivating vegetable and fruit varieties that are resistant to diseases and corrosion in plants. Many computational methods have been developed to infer GRNs, but most of the regulatory relationships between genes obtained by these methods are biased. Eliminating indirect effects in GRNs remains a significant challenge for researchers.

Comparative network analysis reveals the dynamics of organic acid diversity during fruit ripening in peach (Prunus persica L. Batsch).

Background: Organic acids are important components that determine the fruit flavor of peach (Prunus persica L. Batsch). However, the dynamics of organic acid diversity during fruit ripening and the key genes that modulate the organic acids metabolism remain largely unknown in this kind of fruit tree which yield ranks sixth in the world.

Dynamic Network Biomarker Analysis Reveals the Critical Phase Transition of Fruit Ripening in Grapevine.

Grapevine ( L.) fruit ripening is a complex biological process involving a phase transition from immature to mature. Understanding the molecular mechanism of fruit ripening is critical for grapevine fruit storage and quality improvement.

PiTLiD: Identification of Plant Disease From Leaf Images Based on Convolutional Neural Network.

With the development of plant phenomics, the identification of plant diseases from leaf images has become an effective and economic approach in plant disease science. Among the methods of plant diseases identification, the convolutional neural network (CNN) is the most popular one for its superior performance. However, CNN's representation power is still a challenge in dealing with small datasets, which greatly affects its popularization.

Diversity and Functional Evolution of Terpene Synthases in Rosaceae.

Terpenes are organic compounds and play important roles in plant development and stress response. Terpene synthases (TPSs) are the key enzymes for the biosynthesis of terpenes. For Rosaceae species, terpene composition represents a critical quality attribute, but limited information is available regarding the evolution and expansion occurring in the terpene synthases gene family.