Pan-Gene Atlas: Gene Expression and eQTL Information in 327 Hexaploid Wheat Lines

00.Pan_gene.atlas.mRNA.fa: FASTA sequences of the pan-gene atlas.01.pan_gene_atlas.type.txt: A list of all representative gene IDs included in the pan-gene atlas, along with their classifications. 02.327sample.pan-gene_atlas.TPM.txt: Gene expression matrix of the pan-gene atlas across 327 samples.03.Orthogroups.GeneCount.tsv: Orthogroups of homologous genes from 44 wheat genomes with different ploidy levels, including the number of genomes and genes in each Orthogroup.03.Orthogroups.tsv: A matrix listing gene IDs within each Orthogroup.03.Orthogroups_UnassignedGenes.tsv: A list of unique genes specific to different ploidy wheat genomes.04.all.active-eQTG.txt: eQTL results (Type 1-1): SNPs located in expressed genes (active-eQTGs) that are associated with variation in eGene expression levels at the population level.04.eGene_active-eQTG.correlation.txt: eQTL results (Type 1–2): Spearman correlation (|SCC| > 0.3, p 04.active-eQTG.SCC0.3p0.05.txt : eQTL results (Type 1–3): Associations in which the expression levels of active-eQTGs show a Spearman correlation coefficient (|SCC| > 0.3, p 04.inactive-eQTG.txt: eQTL results (Type 2): SNPs located in non-expressed genomic regions (inactive-eQTGs) that are associated with eGene expression from the pan-gene atlas at the population level.04.intergenic-eQTL.txt: eQTL results (Type 3): SNPs located in intergenic regions (intergenic-eQTLs) that are associated with eGene expression variation from the pan-gene atlas.05.only_introgression.1B1R.active-eQTG.txt: Summary of active-eQTGs identified from 50 1RS.1BL introgression lines.05.only_introgression.1B1R.inactive-eQTG.txt: Summary of inactive-eQTGs identified from 50 1RS.1BL introgression lines.05.only_introgression.1B1R.intergenic-eQTL.txt: Summary of intergenic-eQTLs identified from 50 1RS.1BL introgression lines.06.only_introgression.2D.active-eQTG.txt: Summary of active-eQTGs identified from 49 chromsome 2D introgression lines.06.only_introgression.2D.inactive-eQTG.txt: Summary of inactive-eQTGs identified from 49 chromsome 2D introgression lines.06.only_introgression.2D.intergenic-eQTL.txt: Summary of intergenic-eQTLs identified from 49 chromsome 2D introgression lines.07.only_introgression.timopheevii_5G.5B.active-eQTG.txt: Summary of active-eQTGs identified from 74 timopheevii_5G.5B introgression lines.07.only_introgression.timopheevii_5G.5B.inactive-eQTG.txt: Summary of inactive-eQTGs identified from 74 timopheevii_5G.5B introgression lines.07.only_introgression.timopheevii_5G.5B.intergenic-eQTL.txt: Summary of intergenic-eQTLs identified from 74 timopheevii_5G.5B introgression lines.