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  1. 说明
  2. 各组学统计信息
    1. Evolutions
    2. Populations
    3. Phenomics
    4. Metabolomics
    5. Germplasms
    6. Genomics
    7. Variations
    8. Epigenetics
    9. Transcriptomics
    10. Genetics

说明

  • 用富文本和表格的形式展示每个组学的统计信息

  • 将下一个章节中的每个二级目录中的富文本/表格与对应组学的SVG分组进行交互

各组学统计信息

Evolutions

Storage of selection regions related to maize domestication and adaptation:

SelectTypePopulation ComparedSelectTagNumber Of Regions
AdaptationTEMvsTSTFST997,422
AdaptationTEMvsTSTXPCLR662,610
DomesticationMexicanavsMaizeFST1,000,604
DomesticationMexicanavsMaizeXPCLR1,640,409
DomesticationParviglumisvsMaizeFST1,001,197
DomesticationParviglumisvsMaizeXPCLR1,660,502

Populations

Collection of individuals including all Zea species:

Species/Groupsfrequency
Td2
Zn14
Zl14
Zp19
Zd20
Zh5
Zx81
Zv70
TEO-MIX14
Zm-TST241
Zm-TEM299
Zm-MIX29

Phenomics

Collection of population-level agronomic traits from different locations and multiple years:

OmicsCategoryNumber of Traits
Agronomicdisease12
Agronomicflowering105
Agronomicmoisture30
AgronomicMorphic/Yeild171

Metabolomics

Collection of population-level metabolite contents of maize leaf and kernel:

OmicsCategoryTypeNumber of Traits
Metaboliteprimary_metaAmino_acid277
Metaboliteprimary_metaCarbohydrates40
Metaboliteprimary_metaFatty_Acids30
Metaboliteprimary_metaOrganic_acid61
Metaboliteprimary_metaTryptophan20
Metaboliteprimary_metaVitamin25
Metaboliteprimary_metaOthers28
Metabolitesecondary_metaFlavonoid74
Metabolitesecondary_metaPhenolamides46
Metabolitesecondary_metaLysophosphatide31
Metabolitesecondary_metaFatty_Acids14
Metabolitesecondary_metaAlkaloid7
Metabolitesecondary_metaOthers122

Germplasms

Collection of 453 common maize germplasms that has seeds stored in BRC-PAM:

SpeciesoriginNumber of Germplasms
ZmThailand2
ZmUSA56
ZmChina194
ZmCIMMYT201

Genomics

Collection of genome assemblies and gene annotations of Zea species:

SpeciesGenome VersionNumber of GenesNumber of TEs
ZmB73.v4.039,5912,662,838
ZmB73.v5.039,7561,513,619
ZmCML228.v1.041,5771,538,629
ZmCML69.v1.040,2721,554,165
ZmHZS.v1.040,8933,143,643
ZmKN5585.v1.040,7652,989,565
ZmMO17.v1.038,6202,719,073
ZmSK.v1.043,2712,778,026

Variations

Collection of population-level genotypes of genetic variations:

PopulationAnalysisTypeNumber of Variants
TEO,AMPZA02aVAR000001SNP70,730,921
TEO,AMPZA02aVAR000001Short Deletion4,097,690
TEO,AMPZA02aVAR000001Short Insertion4,888,941
AMPZA02aVAR000002SV-INV1,563
AMPZA02aVAR000002SV-TRA26,894
AMPZA02aVAR000002SNP10,770,214
AMPZA02aVAR000002SV-INS19,437
AMPZA02aVAR000002SV-DEL180,132
AMPZA02aVAR000002SV-DUP6,992
AMPZA02aVAR000002Short Insertion964,520
AMPZA02aVAR000002Short Deletion844,749
AMPZA02aVAR000003SNP2,451,616
AMPZA02aVAR000004SNP52,376

Epigenetics

Epigenetics

  • Histone modification: B73 seedling Histone modification including H3K27ac H3K27me3 H3K4me1 and H3K4me3;

  • Chromatin Accessibility: B73 chromatin accessibility of root and shoot measured by MNase;

  • DNA methylation: DNA methylation data (CpG, CHH and CHG) from V3 leaf of 263 AMP individuals;

  • Chromatin interaction: Collection of maize chromatin interaction information:

TissueTypeNumber of Interaction pairs
leafHiC4,285
leafK4me3-HiChIP67,012
leafK27me3-HiChIP39,818
Immature earH3K27ac-ChIA-PET20,980
Immature earH3K4me3-ChIA-PET14,000
ShootH3K27ac-ChIA-PET19,384
ShootH3K4me3-ChIA-PET17,822
2-4mm tasselloops28,748
leaf mesophyll cellloops5,616
2-4mm earloops42,300
SeedlingRNAPII25,002
SeedlingH3K4me349,766

Transcriptomics

Transcriptomics

  • Reference Expression: Collection of gene expression in different tissues of 8 genomes

  • Population Expression: Collection of population-level gene expression in maize association mapping panel:

  • Kernel: expression of 42,116 genes in 340 germplasms

  • Leaf: expression of 43,804 genes under 3 conditions in 225 germplasms

  • Transcript factor binding sites: Collection of Chip-Seq data of 104 transcript factor in maize based on B73v4

Genetics

Genetics

  • Linkage mapping: Collection of 787 QTLs from 12 linkage maps

  • Association mapping: Collection of 93,569 QTLs from 29,271 multi-omics traits

  • GWAS Summary data: Collection of GWAS summary results of 29,271 multi-omics traits