Plant
Exp
-- Brassica napus --
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Coexpression
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Summary
Cross-specific comparison gene expression
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Retrieve experiments of reference species
RNA-seq
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Reference species - Brassica napus
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Species
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[Apiales] Daucus carota, 440 experiments
[Asterales] Helianthus annuus, 1025 experiments
[Asterales] Lactuca sativa, 544 experiments
[Capparales] Arabidopsis halleri, 1333 experiments
[Capparales] Arabidopsis lyrata, 214 experiments
[Capparales] Arabidopsis thaliana, 32893 experiments
[Capparales] Brassica rapa, 2362 experiments
[Capparales] Raphanus sativus, 349 experiments
[Caryophyllales] Beta vulgaris, 395 experiments
[Caryophyllales] Spinacia oleracea, 276 experiments
[Cucurbitales] Citrullus lanatus, 631 experiments
[Cucurbitales] Cucumis melo, 684 experiments
[Cucurbitales] Cucumis sativus, 1161 experiments
[Cucurbitales] Momordica charantia, 16 experiments
[Euphorbiales] Hevea brasiliensis, 290 experiments
[Euphorbiales] Manihot esculenta, 729 experiments
[Euphorbiales] Ricinus communis, 52 experiments
[Fabales] Arachis hypogaea, 1040 experiments
[Fabales] Glycine max, 4131 experiments
[Fabales] Glycine soja, 401 experiments
[Fabales] Ipomoea triloba, 29 experiments
[Fabales] Medicago truncatula, 1974 experiments
[Fabales] Phaseolus vulgaris, 769 experiments
[Fabales] Trifolium pratense, 60 experiments
[Fabales] Vigna angularis, 75 experiments
[Fabales] Vigna radiata, 102 experiments
[Fabales] Vigna unguiculata, 29 experiments
[Geraniales] Linum usitatissimum, 401 experiments
[Juglandales] Juglans regia, 162 experiments
[Lamiales] Sesamum indicum, 389 experiments
[Liliales] Dioscorea rotundata, 19 experiments
[Malvales] Corchorus capsularis, 92 experiments
[Malvales] Gossypium arboreum, 224 experiments
[Malvales] Gossypium hirsutum, 2813 experiments
[Malvales] Gossypium raimondii, 60 experiments
[Malvales] Herrania umbratica, 6 experiments
[Malvales] Theobroma cacao, 222 experiments
[Marchantiales] Marchantia polymorpha, 273 experiments
[Marchantiales] Physcomitrium patens, 761 experiments
[Nymphaeales] Nelumbo nucifera, 119 experiments
[Poales] Brachypodium distachyon, 1300 experiments
[Poales] Hordeum vulgare, 5264 experiments
[Poales] Oryza barthii, 7 experiments
[Poales] Oryza glaberrima, 11 experiments
[Poales] Oryza longistaminata, 34 experiments
[Poales] Oryza nivara, 19 experiments
[Poales] Oryza punctata, 3 experiments
[Poales] Oryza rufipogon, 137 experiments
[Poales] Oryza sativa Indica Group, 1153 experiments
[Poales] Oryza sativa Japonica Group, 10415 experiments
[Poales] Panicum hallii, 433 experiments
[Poales] Saccharum spontaneum, 253 experiments
[Poales] Setaria italica, 453 experiments
[Poales] Setaria viridis, 339 experiments
[Poales] Sorghum bicolor, 2133 experiments
[Poales] Triticum aestivum, 4950 experiments
[Poales] Triticum urartu, 72 experiments
[Poales] Zea mays, 23736 experiments
[Principes] Elaeis guineensis, 204 experiments
[Principes] Jatropha curcas, 130 experiments
[Rhamnales] Vitis vinifera, 4266 experiments
[Rhamnales] Ziziphus jujuba, 256 experiments
[Rosales] Malus domestica, 1443 experiments
[Rosales] Prunus avium, 274 experiments
[Rosales] Prunus persica, 708 experiments
[Rosales] Pyrus x bretschneideri, 198 experiments
[Rosales] Rosa chinensis, 177 experiments
[Rubiales] Coffea arabica, 226 experiments
[Rutales] Citrus clementina, 50 experiments
[Rutales] Citrus sinensis, 571 experiments
[Rutales] Olea europaea, 325 experiments
[Salicales] Populus deltoides, 1009 experiments
[Salicales] Populus euphratica, 61 experiments
[Salicales] Populus trichocarpa, 0 experiments
[Salicales] Salix purpurea, 194 experiments
[Selaginellales] Selaginella moellendorffii, 99 experiments
[Solanales] Capsicum annuum, 1013 experiments
[Solanales] Ipomoea nil, 27 experiments
[Solanales] Nicotiana attenuata, 67 experiments
[Solanales] Nicotiana tabacum, 330 experiments
[Solanales] Solanum lycopersicum, 7630 experiments
[Solanales] Solanum pennellii, 564 experiments
[Solanales] Solanum tuberosum, 1766 experiments
[Volvocales] Chlamydomonas reinhardtii, 1256 experiments
RNA-seq
Layout
PAIRED
SINGLE
ANY
Read length(>=)
45bp
70bp
100bp
150bp
300bp
Base(>=)
0GB
1GB
2GB
3GB
4GB
5GB
6GB
7GB
8GB
9GB
10GB
11GB
12GB
Data Source
Source
PubMed
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GEO
ANY
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Analysis parameters
Orthology group
Scope
1 : 1
all
Differential expression
Method
DESeq2
edgeR
Fold-Change
2
4
8
16
Q-Value
0.01
0.03
0.05
0.1
0.2
0.5
Model
exact test
likelihood ratio test
quasi-likelihood F test
Batch effect
?
Batch effect from studies can be fit when the selected studies cover control and treatment simultaneously. Otherwise, batch effect from studies will be ignored.
none
study
Metric
TPM
FPKM
Read counts per million
1
10
20
50
100
200
Expression relevance
Method
pearson
kendall
spearman
Coefficient(>=)
-0.9
-0.8
-0.7
-0.6
-0.5
-0.4
-0.3
-0.2
-0.1
0
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
0.9
Job name & E-mail
Job name
Email