EMS稀有突变-性状关联

当前结果限定于 8 条核染色体;BH 校正在每个性状和聚合方式内重算。基础与精细置换次数不同,精细置换仅用于入选候选单元。

当前页面仅展示新版 EMS rare-variant aggregate association 结果,可按表型、基因/启动子/窗口聚合单元和 Gene ID 查询。

新版聚合关联数据

不把 singleton 当作单标记 GWAS 硬算;先按基因 CDS/LoF、启动子 2 kb、100 kb 固定窗口聚合稀有突变。针对每个性状,将表型与聚合基因型向量在截距和基于 QC 基因型的 PC1-PC3 上残差化,再用 permutation CMC carrier score 和 burden-count score 评估关联。

下载当前结果 TSV
237匹配材料
7表型性状
72003聚合单元
504013结果行
10000基础置换
1000000精细置换
示例

关联可视化

当前采用两阶段置换:全量聚合单元使用 10000 次置换,达到顶线的候选单元进一步 refined 到 1000000 次置换;refined 后经验 P 值最小约为 1.0e-06,-log10(P) 最高约为 6.00。

聚合信号图

聚合信号图

类似 Manhattan 图,展示全基因组聚合单元的最优经验 P 值。

QQ 图

QQ 图

展示 CMC 与 burden 置换 P 值的整体分布。

Top 候选单元

Top 候选单元

按最优经验 P 值排序的候选聚合单元。

稀有 EMS 聚合候选单元

P 值为经验置换 P 值:全量聚合单元使用 10000 次基础置换,顶线候选单元 refined 到 1000000 次置换;FDR 在同一性状和同一聚合类型内计算。low-power 表示携带材料少于 3 个,只作为候选证据参考。

下载 TSV
性状/单元 基因/窗口 突变数 Singletons 携带材料 CMC P/FDR Burden P/FDR 材料 说明
叶片面积估算(cm2)
gene_cds
SmilChr01G005150
Chr1:69266267-69272616
22 13 24 1e-06
0.0295
2.5e-05
0.344
B136,B108,A22,C79,A10,B70,B78,C82,A23,B82,B5,B46,B21,B22,B2,C23,B94,B37,B68,B87,B112,B124,C34,B64,C30 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr05G001145
Chr5:9586283-9593541
12 6 21 2e-06
0.0295
5e-06
0.148
B108,A22,C79,C76,A10,C82,B105,B139,B89,B46,C73,C85,C71,B2,A19,C53,C16,B1,B117,B76,A21 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr08G000315
Chr8:2209657-2210442
29 18 42 2e-05
0.177
0.00162
0.808
B108,A22,C79,B134,C82,B107,B99,C59,B139,B82,B5,B46,A4,C54,B36,B2,C80,A14,A15,B13,B41,B57,B7,B122,B104,B106,B118,C2,C87,A2,B12,B52,B123,B14,B25,B1,B117,C72,C13,A16,C57,C77 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr01G004895
Chr1:66999498-67033680
22 13 33 2.4e-05
0.177
3.5e-05
0.344
B108,A22,C79,B78,C82,B109,B107,A23,C61,B22,C54,C85,C22,A14,C23,C74,A19,B13,B30,B122,B100,B118,C31,C36,B12,C19,B29,C68,C69,C81,B55,C11,B51 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr01G005249
Chr1:70016967-70017682
2 1 3 6.8e-05
0.401
8.3e-05
0.612
B108,A22,C23 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr06G001077
Chr6:10702901-10704055
48 20 68 8.4e-05
0.413
0.000214
0.675
C59,B139,B21,A11,C80,C70,C8,B133,B35,B4,B41,B59,C21,B122,B104,B44,B93,C2,C31,C36,C62,C64,A2,B3,B48,B98,B14,C40,C53,B16,B63,B81,C4,C65,B33,B1,B10,B117,B121,B83,C68,C13,C14,C27,B111,B132,B103,B124,B38,B8 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr01G004743
Chr1:65611703-65613208
17 9 25 0.000154
0.492
0.000181
0.675
B84,C79,C76,B88,B105,C59,B139,B46,B69,C1,B18,B11,C74,A5,B41,B59,B73,A3,C41,C40,B81,B112,B83,A18,B28 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr05G003347
Chr5:44057516-44058670
77 20 127 0.0002
0.492
0.143
0.976
B70,C82,B139,B82,B89,C61,A4,B110,B21,B22,B23,B54,C1,C33,C50,C54,C73,C22,B2,C80,B15,C70,A15,A25,A5,B128,B133,B35,B73,B92,C21,C63,C84,B122,B100,B102,B118,B68,B87,B93,B96,C18,C2,C31,C36,C41,C62,C64,C87,A2 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr06G000453
Chr6:3673574-3675178
85 47 88 0.0002
0.492
0.0075
0.885
B136,B108,C76,B99,B17,B69,C50,C22,B137,A15,A19,A5,B128,B92,C21,B122,C58,C9,A3,B100,B102,B104,B106,B118,B37,B44,B47,C18,C31,C45,C62,C64,C87,A2,B52,C19,A20,B115,B123,B135,B43,B63,B67,B75,C38,C4,C65,B33,B10,B112 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr02G002750
Chr2:47534010-47538392
7 0 15 0.0002
0.492
0.0006
0.675
B108,A10,C82,B17,B89,B5,C33,B131,C23,C74,B113,B44,B93,B1,B132 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr08G003649
Chr8:40098601-40103368
4 1 6 0.0002
0.492
0.0005
0.675
B84,B109,C59,C3,C61,C33 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr01G003198
Chr1:50752557-50757349
4 3 5 0.0002
0.492
0.0003
0.675
B108,C79,B78,C23,C2 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr01G005265
Chr1:70114446-70115342
2 1 3 0.0003
0.59
0.0002
0.675
A22,C82,B105 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr03G001996
Chr3:29548334-29575887
51 21 82 0.01
0.872
0.0002
0.675
B108,A22,B84,A10,B78,B88,B105,C59,B17,B89,C61,B46,A4,C33,C50,C54,C7,A11,B18,C71,B129,B36,B2,C80,A14,C23,C74,A25,B133,B30,B35,B41,B59,B92,B95,C17,C84,B34,B118,B68,B97,C10,C29,C31,C36,C64,C87,A2,B72,B80 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr02G002646
Chr2:45853296-45855741
65 38 65 0.0021
0.872
0.0002
0.675
B108,B84,C79,C76,A10,B70,C82,B109,B107,A23,B89,C61,B5,A4,B69,B21,B22,C50,C85,C22,B2,C8,B41,C17,C63,B113,B122,B34,C58,B104,B118,B44,B62,C2,C41,C45,C49,A2,B12,C44,B115,B29,B32,C53,B135,B63,B67,B81,C16,B1 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr06G002838
Chr6:41147600-41148591
19 8 227 0.0003
0.59
0.006
0.831
B136,B108,B84,C79,C76,A10,B134,B70,C82,B109,B107,B105,B99,C59,A23,B139,B17,B82,B89,C3,C61,B5,B46,A4,B69,B6,B110,B22,B54,C1,C33,C50,C54,C7,C73,C85,A11,B131,B18,C71,B129,C22,B36,B2,C80,B137,A14,B11,B15,C23 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr04G001993
Chr4:32234830-32236495
3 2 7 0.0003
0.59
0.0006
0.675
B108,B5,B22,C50,C7,C85,B34 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr05G000038
Chr5:171725-174936
13 5 44 0.0186
0.872
0.0003
0.675
B108,A22,B84,B78,C82,B5,B46,C50,C54,C73,C85,B129,B36,B2,C23,C70,A15,A19,A5,B35,B56,B65,B24,B96,C36,C41,C45,C49,B12,B32,B135,B25,B67,B10,B121,C72,B111,C12,C20,B101,B119,C78,C35,B77 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr01G005454
Chr1:71586484-71588692
46 21 154 0.145
0.95
0.0004
0.675
B136,B108,A22,C79,C76,A10,B70,B78,B88,C82,B109,B107,B99,A23,B139,B17,B82,B89,C3,C61,B5,A4,B6,B110,B21,B23,B54,C33,C50,C7,C85,B18,C71,B129,C22,B2,B137,A14,B11,B15,C70,C74,C8,A15,A19,A25,A5,B128,B133,B30 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr01G006153
Chr1:76973223-76996903
2 1 3 0.0004
0.694
0.0005
0.675
B108,B88,C54 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr01G000810
Chr1:17484629-17485196
34 9 34 0.0004
0.694
0.0107
0.902
B108,A10,B78,C82,B107,B99,A23,B89,B5,B6,C1,A11,B18,B15,C23,C74,A19,B35,B57,B65,B113,B60,B97,C6,B29,B32,B16,B67,C47,C65,B117,B111,C43,A13 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr08G003457
Chr8:37054589-37056545
8 5 18 0.0018
0.872
0.0005
0.675
B108,B107,B82,C1,C50,C7,C85,B2,C23,C8,B128,B56,B100,B68,B96,B98,C52,C48 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr03G004711
Chr3:64364613-64367455
16 13 11 0.0127
0.872
0.0005
0.675
A22,B84,C76,A6,B92,B97,C10,C45,C52,B111,B90 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr03G002700
Chr3:42965603-42969421
178 60 218 0.0005
0.708
0.0458
0.963
B136,B108,A22,B84,C79,C76,A10,B134,B70,B78,B88,C82,B109,B107,B105,B99,C59,A23,B139,B17,B82,B89,C3,C61,B5,B46,A4,B69,B6,B110,B21,B22,B23,B54,C1,C33,C50,C54,C7,C73,C85,A11,B131,B18,C71,B129,B36,B2,C80,B137 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr03G004472
Chr3:62821559-62829024
98 28 192 0.0005
0.708
0.0891
0.965
B108,B84,C79,C76,B134,B88,B107,B105,C59,B139,B17,B82,B89,C3,B46,B69,B110,B21,B23,B54,C50,C54,C7,C85,A11,B131,B129,C22,B36,B2,C80,A14,B11,B15,C23,C70,C74,C8,A19,A6,B128,B13,B133,B30,B35,B4,B41,B57,B59,B65 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr06G000234
Chr6:1566176-1571061
23 7 75 0.0005
0.708
0.0037
0.808
B136,B84,B88,B139,B17,B89,C61,B69,B18,C70,A25,A5,B128,C17,C9,A3,B102,B104,B118,B93,B97,C31,C36,C87,A2,B48,B52,C19,C44,B130,B49,B115,B29,B135,B16,B67,B81,C4,C47,B33,B1,B10,B112,B83,C15,C68,C69,C27,A18,B26 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr08G003688
Chr8:41200216-41203439
165 61 225 0.705
0.991
0.0006
0.675
B136,B108,A22,B84,C79,A10,B134,B70,B78,B88,C82,B109,B107,B105,B99,C59,A23,B139,B17,B82,B89,C3,C61,B5,B46,A4,B69,B6,B110,B21,B22,B23,B54,C1,C33,C50,C54,C7,C85,A11,B131,B18,C71,B129,C22,B36,B2,C80,B137,A14 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr02G004451
Chr2:66864139-66867128
37 9 75 0.123
0.946
0.0006
0.675
B136,B108,B84,C79,B88,B109,B107,C59,A23,B139,B82,C3,B46,B69,B54,C33,C7,C85,C71,B36,B2,A14,A25,A5,B128,B13,B35,B56,B59,B24,B113,A3,B104,B44,B68,B96,B97,C10,C41,C49,C6,C62,B12,B3,B48,C19,B130,B32,C53,B40 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr01G005424
Chr1:71419189-71424192
13 5 68 0.0165
0.872
0.0006
0.675
B108,A22,C79,C76,B99,A23,B139,B89,C61,B5,B21,B22,C1,C33,C7,C73,A11,B36,B2,B137,B11,B15,C23,B13,B30,B65,B92,C67,C84,B122,B104,B106,B118,B62,B68,C10,C18,C2,C87,B3,B48,C44,B130,B31,B115,B29,C53,B135,B75,B81 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr05G001728
Chr5:16678505-16679794
12 1 27 0.0104
0.872
0.0006
0.675
B108,C79,A10,B134,B88,B69,C33,C54,C70,B4,B59,B7,B73,C21,C58,B104,B68,C31,C45,B43,B67,B90,C51,C56,C86,B9,C78 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr04G002197
Chr4:35543812-35545724
15 7 25 0.0007
0.762
0.0006
0.675
A22,A10,B78,B107,B99,C59,A23,B69,C50,C23,B30,B41,C17,C63,C84,B37,B44,C2,C49,C87,B130,B115,C38,B85,A8 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr01G004335
Chr1:61471244-62277610
14 8 20 0.0006
0.708
0.0007
0.675
B108,B84,B78,B88,C82,C3,B22,C1,C50,B129,B36,B41,B44,C49,C65,C69,C48,C5,C11,A13 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr07G003480
Chr7:39081857-39083676
6 2 10 0.0196
0.872
0.0006
0.675
B108,B78,B5,C85,C80,B94,A2,B12,B55,A24 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr05G000907
Chr5:7176158-7179916
6 3 8 0.0073
0.872
0.0006
0.675
B108,B78,B82,A4,C23,C53,B63,B79 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr07G002042
Chr7:18520527-18524903
16 5 149 0.0006
0.708
0.0012
0.77
C76,A10,B134,B70,B78,C82,B99,A23,B139,B82,C3,B46,A4,B21,B22,B23,C7,C73,C85,A11,B131,B36,C80,B137,C74,C8,A15,A25,A5,B128,B13,B35,B4,B41,B57,B65,B7,B95,C63,C84,B24,B34,C58,A3,B104,B37,B44,B60,B68,B93 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr02G003612
Chr2:57365660-57366022
35 15 48 0.0006
0.708
0.0639
0.963
B108,B84,C79,A10,B107,B99,B139,B17,B46,B69,B21,C7,C73,B131,C71,B36,B2,C70,A5,B133,B35,B65,B7,B92,B94,B95,B122,B100,B102,B104,B118,B68,C41,C87,A2,C19,B135,B40,B75,B1,C68,C69,C14,A16,B119,B66,A21,A7 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr02G000793
Chr2:13079223-13080688
15 10 20 0.0006
0.708
0.004
0.808
B108,B84,B88,B82,C61,B5,B21,B36,B137,C23,A19,B41,B94,B97,B52,A20,B14,B29,B117,C72 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr08G001755
Chr8:14762975-14764071
6 5 9 0.0006
0.708
0.0015
0.805
B108,A22,B78,B110,C23,B113,B52,B117,C12 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr07G000692
Chr7:4729254-4750130
9 3 136 0.003
0.872
0.0007
0.675
B136,A22,B84,A10,C82,B105,C59,A23,B139,B17,B82,B5,C1,C33,B131,C71,B129,C22,B36,B2,B11,B15,C74,A19,A25,A5,B13,B30,B4,B41,B56,B59,B7,B92,B94,B95,C17,C21,B24,B122,B34,C58,C9,B100,B106,B37,B47,B62,B87,B96 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr07G004582
Chr7:58637321-58640575
15 0 89 0.0098
0.872
0.0007
0.675
B108,A22,B84,C79,A10,B134,B78,B105,B99,C59,A23,B139,B89,C3,B46,B110,B23,C1,C54,A11,B131,C71,B129,B36,B2,C80,B11,C8,A6,B128,B13,B30,B56,B7,B95,C17,B34,C58,B106,B118,B47,B60,B62,B93,B96,B97,C10,C18,C2,C6 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr05G001033
Chr5:8471070-8472693
8 0 62 0.0008
0.762
0.0007
0.675
B136,B108,A22,C76,A10,B70,B78,B109,B99,B139,B89,B46,B69,B6,B110,B22,B23,C33,C54,C7,A11,B18,B129,B11,B15,C8,B30,B35,B65,B94,C21,C63,B113,C58,A3,B104,B37,B60,B68,C29,C31,C87,B39,B52,B80,C19,C53,C16,C27,B120 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr03G002891
Chr3:45593903-45597355
2 0 21 0.0048
0.872
0.0007
0.675
B108,C79,C76,B109,B107,B139,C22,C23,B56,B73,B95,B47,B60,B96,C41,B3,A20,B63,B120,C56,C57 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr02G003604
Chr2:57284584-57295877
30 14 33 0.0007
0.762
0.019
0.916
B84,C76,A10,B78,C82,B107,A23,B17,C3,B46,C1,C50,A11,C22,B2,B41,B73,B24,A3,B102,B104,C29,C36,C45,C6,B16,B25,B67,C38,B33,C48,B119,A21 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr08G000033
Chr8:236778-240106
106 31 161 0.0444
0.872
0.0008
0.675
B108,A22,B84,C79,C76,B70,B109,C59,B139,B17,B82,C3,C61,B46,A4,B6,B21,B22,C1,C54,A11,B131,B18,C71,B36,B2,B137,A14,B11,B15,C23,C70,C74,A15,A25,A5,A6,B128,B13,B30,B4,B41,B56,B59,B65,B7,B92,B94,B95,C17 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr05G004307
Chr5:56768788-56773132
54 25 55 0.0168
0.872
0.0008
0.675
A22,A10,B70,B78,B109,B107,C59,A23,B139,B69,B21,B23,C54,C85,B129,A25,B13,B133,B4,B56,B65,B7,C63,B24,B122,B100,B104,B138,B44,B87,B93,B96,C29,C45,C49,C6,B12,B52,B72,B98,C40,B135,B67,B33,C15,C14,A9,B124,B127,B8 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr01G005620
Chr1:72690541-72694629
20 8 37 0.0055
0.872
0.0008
0.675
B108,C79,A10,B78,B88,C82,B139,B110,B21,C33,C85,B131,C71,B137,C23,C8,A15,B13,B122,B100,B104,B44,C2,C41,C87,B130,B1,B112,C69,C14,B124,C48,B28,A8,C11,B66,A21 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr06G003116
Chr6:44007832-44009843
24 11 31 0.0214
0.872
0.0008
0.675
A22,B84,C76,A10,B134,A23,B17,C80,C8,A15,B133,B65,B94,C17,C84,A3,B104,B44,C41,C45,B3,B123,C16,B121,B71,C69,C13,A18,C20,B126,B79 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr01G004197
Chr1:60435082-60442917
14 5 28 0.0017
0.872
0.0008
0.675
B108,A22,C76,B105,B99,A23,B5,C50,C23,C70,A15,A25,B128,B57,B93,C31,C41,C49,B12,B80,B49,B43,B75,B1,B10,C27,B42,B51 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr03G004021
Chr3:59189135-59192312
17 8 82 0.0008
0.762
0.0034
0.808
B108,B84,C79,C76,A10,B134,B78,C82,B99,C59,B139,B89,B5,B46,A4,B110,B21,B22,C33,C50,C54,C85,A11,B129,C22,B36,B2,C80,A14,A5,A6,B13,B35,B4,B41,B7,B94,C17,C63,B24,B122,C58,B100,B104,B106,B87,C29,C36,C62,C87 Curated EMS CDS/LoF variants aggregated by gene
叶片面积估算(cm2)
gene_cds
SmilChr08G001146
Chr8:9039284-9043296
18 5 34 0.0008
0.762
0.0037
0.808
B136,B108,B134,B70,B78,C82,A23,B139,B17,B82,C61,B23,C1,B131,C22,B15,C23,B13,B35,B65,B138,B47,B68,C10,C62,B12,B25,C16,B1,A18,B26,B8,C24,B66,A21 Curated EMS CDS/LoF variants aggregated by gene