IntegrativeNetworkMap

All analysis was divided into 6 sections:

Section0: Identification and quantification of mRNAs, lncRNAs, circRNAs and small RNAs; calculation of protein-coding RNA expression by Ribo-seq; and acquisition of protein-protein interactions.

Section1: Construction of six different type networks (Slim co-expression network, Co-translation network, Co-expression network with ncRNA, Interactome, Slim-IntegrativeOmics, IntegrativeOmics with ncRNAs) and statistics of network properties.

Section2: Clustering and assessing functional divergence of duplicated genes from the network perspective.

Section3: Asymmetric regulatory divergence between the two maize subgenomes.

Section4: Prediction gene function and reconstruction regulating networks underlying complex traits.

Section5: The integrative network map boosts prediction of FT-genes by machine learning.

DOI: 10.5281/zenodo.7263543