Arabidopsis thaliana

Organism Details
Common Name Arabidopsis
Genus Arabidopsis
Species thaliana
Abbreviation A.thaliana
Description

Arabidopsis serves as the model species for plants.  It has a wealth of both genetic and genomic resources.  The networks provided on this site were produced using publicly available samples of the Affymetrix ATH1 array.  Two types of networks are currently available  The first is a set of networks created by manually segregating input samples into categories by tissue type.  The second is a knowledge-independent sorting of if input samples into groups of similar expression.  (Photo by Sui-setz).

Click "Networks" in the "Resources" menu to the right to view a list of all networks for this species. In summary, the following networks are available:

  • The arabidopsis global gene co-expression network v1.0
  • Arabidopsis K90 GIL-collection--a set of 86 networks built from pre-clustering of input samples.
  • Arabidopsis Tissue networks--a set of 9 networks built from manual pre-clustering of samples by tissue type.
Source Data

Information and data required to construct the networks for this species can be found at the following locations:

Publications
Genomic/Genetic Data Summary
The following genomic and genetic data types are currently present for this organism.
Feature Type Count
Chromosomes 7
Genes 28,775
SNPs 3,703
InDel 3
MNP 4
QTLs 0
Networks
The following network are available for this species. Click on a network for further details and exploration.
Network Name Network Type Module Count Edge Count Node Count Average Degree <k>
ATH_Aerial_v01 co-expression 346 3,415 1,776 3.85
ATH_Flower_v01 co-expression 116 7,056 969 14.56
ATH_GIL01_v01 co-expression 935 5,746 2,552 4.50
ATH_GIL02_v01 co-expression 716 6,885 1,916 7.19
ATH_GIL03_v01 co-expression 1,024 5,437 2,913 3.73
ATH_GIL04_v01 co-expression 1,029 5,548 2,750 4.03
ATH_GIL05_v01 co-expression 370 3,833 992 7.73
ATH_GIL06_v01 co-expression 964 13,873 2,443 11.36
ATH_GIL07_v01 co-expression 930 3,239 2,482 2.61
ATH_GIL08_v01 co-expression 585 4,722 1,594 5.92
ATH_GIL09_v01 co-expression 707 15,338 1,858 16.51
ATH_GIL10_v01 co-expression 650 9,086 1,804 10.07
ATH_GIL11_v01 co-expression 829 14,582 1,964 14.85
ATH_GIL12_v01 co-expression 505 5,026 1,256 8.00
ATH_GIL13_v01 co-expression 472 3,340 1,290 5.18
ATH_GIL14_v01 co-expression 1,361 34,969 3,282 21.31
ATH_GIL15_v01 co-expression 791 9,911 1,923 10.31
ATH_GIL16_v01 co-expression 617 3,924 1,549 5.07
ATH_GIL17_v01 co-expression 817 11,206 1,894 11.83
ATH_GIL18_v01 co-expression 777 5,167 1,777 5.82
ATH_GIL19_v01 co-expression 1,025 8,010 2,859 5.60
ATH_GIL20_v01 co-expression 1,183 11,068 3,435 6.44
ATH_GIL21_v01 co-expression 607 11,972 1,523 15.72
ATH_GIL22_v01 co-expression 954 5,904 2,458 4.80
ATH_GIL23_v01 co-expression 169 2,805 402 13.96
ATH_GIL24_v01 co-expression 906 4,336 2,341 3.70
ATH_GIL25_v01 co-expression 1,234 7,845 3,491 4.49
ATH_GIL26_v01 co-expression 686 25,414 1,786 28.46
ATH_GIL27_v01 co-expression 233 1,692 631 5.36
ATH_GIL28_v01 co-expression 225 5,208 593 17.56
ATH_GIL29_v01 co-expression 954 8,145 2,788 5.84
ATH_GIL30_v01 co-expression 856 19,969 2,106 18.96
ATH_GIL31_v01 co-expression 1,057 6,231 2,697 4.62
ATH_GIL32_v01 co-expression 831 5,740 1,914 6.00
ATH_GIL33_v01 co-expression 565 4,675 1,406 6.65
ATH_GIL34_v01 co-expression 789 6,014 2,200 5.47
ATH_GIL35_v01 co-expression 776 5,359 2,002 5.35
ATH_GIL36_v01 co-expression 529 6,508 1,362 9.56
ATH_GIL37_v01 co-expression 928 6,900 2,444 5.65
ATH_GIL38_v01 co-expression 824 3,469 1,901 3.65
ATH_GIL39_v01 co-expression 687 4,394 1,777 4.95
ATH_GIL40_v01 co-expression 650 4,839 1,861 5.20
ATH_GIL41_v01 co-expression 792 3,578 2,034 3.52
ATH_GIL42_v01 co-expression 681 6,765 1,754 7.71
ATH_GIL44_v01 co-expression 188 5,997 427 28.09
ATH_GIL45_v01 co-expression 867 8,748 2,434 7.19
ATH_GIL47_v01 co-expression 572 4,285 1,443 5.94
ATH_GIL48_v01 co-expression 984 9,131 2,633 6.94
ATH_GIL49_v01 co-expression 796 8,544 1,952 8.75
ATH_GIL50_v01 co-expression 1,266 10,504 3,515 5.98
ATH_GIL51_v01 co-expression 914 3,787 2,366 3.20
ATH_GIL53_v01 co-expression 670 4,655 1,897 4.91
ATH_GIL54_v01 co-expression 751 3,001 1,974 3.04
ATH_GIL55_v01 co-expression 1,484 13,157 3,803 6.92
ATH_GIL56_v01 co-expression 662 12,482 1,410 17.70
ATH_GIL57_v01 co-expression 727 6,579 1,937 6.79
ATH_GIL58_v01 co-expression 726 7,272 1,859 7.82
ATH_GIL59_v01 co-expression 350 1,767 923 3.83
ATH_GIL60_v01 co-expression 657 5,916 1,694 6.98
ATH_GIL61_v01 co-expression 718 9,372 2,005 9.35
ATH_GIL62_v01 co-expression 495 3,846 1,181 6.51
ATH_GIL63_v01 co-expression 843 5,258 2,444 4.30
ATH_GIL64_v01 co-expression 1,042 10,810 3,115 6.94
ATH_GIL65_v01 co-expression 145 1,446 332 8.71
ATH_GIL66_v01 co-expression 1,011 19,467 2,516 15.47
ATH_GIL67_v01 co-expression 1,084 14,673 3,241 9.05
ATH_GIL68_v01 co-expression 493 6,503 1,281 10.15
ATH_GIL69_v01 co-expression 1,181 36,696 3,588 20.45
ATH_GIL71_v01 co-expression 700 6,581 2,030 6.48
ATH_GIL72_v01 co-expression 569 4,324 1,311 6.60
ATH_GIL73_v01 co-expression 855 11,420 2,140 10.67
ATH_GIL74_v01 co-expression 528 2,779 1,238 4.49
ATH_GIL75_v01 co-expression 890 11,395 2,681 8.50
ATH_GIL76_v01 co-expression 553 8,058 1,196 13.47
ATH_GIL77_v01 co-expression 894 4,516 2,331 3.87
ATH_GIL78_v01 co-expression 1,236 13,048 3,504 7.45
ATH_GIL79_v01 co-expression 1,014 4,655 2,585 3.60
ATH_GIL80_v01 co-expression 1,243 22,044 3,286 13.42
ATH_GIL81_v01 co-expression 290 2,495 678 7.36
ATH_GIL82_v01 co-expression 722 8,817 1,975 8.93
ATH_GIL83_v01 co-expression 299 3,267 913 7.16
ATH_GIL84_v01 co-expression 956 7,993 2,519 6.35
ATH_GIL85_v01 co-expression 695 5,322 1,746 6.10
ATH_GIL86_v01 co-expression 1,108 9,110 2,973 6.13
ATH_GIL87_v01 co-expression 812 2,064 1,868 2.21
ATH_GIL88_v01 co-expression 990 9,104 2,920 6.24
ATH_GIL89_v01 co-expression 543 6,006 1,356 8.86
ATH_GIL90_v01 co-expression 245 1,154 610 3.78
ATH_Global_v01 co-expression 236 90,329 2,605 69.35
ATH_Leaf_v01 co-expression 145 3,512 917 7.66
ATH_Root_v01 co-expression 294 7,667 1,685 9.10
ATH_Rosette_v01 co-expression 283 4,027 1,625 4.96
ATH_Seedling_v01 co-expression 253 10,785 1,717 12.56
ATH_Seed_v01 co-expression 203 2,615 1,079 4.85
ATH_Shoot_v01 co-expression 118 3,567 799 8.93
ATH_Whole_v01 co-expression 216 15,303 1,733 17.66

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