Supplementary material - Co-expression pan-network reveals genes involved in complex traits within maize pan-genome

Additional Data Additional file 1: Table S1 Title: Table S1. GWAS-hits within genes and promoters (TPM>5 median) Description: The number of nodes and edges for each NAM genotype are presented for the GWAS-driven co-expression network. Additional file 2: Data S1 Title: Dataset S1. The number of edges shared by the number of lines. Description: The column "number of lines" represent the number of co-expressed gene-pairs (edges) observed in the number of lines. For example, the 5th row represents the unique gene-pairs for each genome whereas the row 30th represent the gene-pairs observed in all 26 NAM genomes. Additional file 3: Data S2 Title: Dataset S2. Enriched GO terms in pan-network sub-categories Description: Enriched GO terms in pan-network sub-categories Additional file 4: Table S2 Title: Table S2. genic vs genic/promoter network stats Description: The number of nodes and edges within the pan-network categories for the GWAS hits overlapping the genic regions only and overlapping either genic or promoter regions. Additional file 5: Data S3 Title: Dataset S3. The distribution of 41 complex traits within the genic and genic/promoter networks Description: The counts and percentages of the trait-associated SNPs overlapping the genic regions and genic/promoter regions. Additional file 6: Data S4 Title: Dataset S4. GO term enrichment in the genic and genic/promoter networks Description: GO term enrichment in the genic and genic/promoter networks Additional file 7: Data S5 Title: Dataset S5. The data for individual pan-networks for 41 traits separately Description: The co-expressed gene pairs (gene1 and gene2) and the list of traits associated with these genes (trait1 and trait2, respectively) are presented together with the NAM genomes co-expressing the both genes and the pan-network sub-category. Additional file 8: Data S6 Title: Dataset S6. Starch associated genes and annotations Description: The annotation of the genes involved in the Starch pan-network Additional file 9: Data S7 Title: Dataset S7. Matrix of GWAS SNP positions in each genome Description: The Wallace GWAS SNPs mapped to each of the 26 NAM genomes