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Integrating Genetics and Genomics to Advance Soybean Research



SoyBase Expression Explorer
Gene expression representations made with eFP at the University of Toronto.
Waese et al. 2017, Plant Cell 29(8):1806-1821 ePlant: Visualizing and Exploring Multiple Levels of Data for Hypothesis Generation in Plant Biology
Libault et al. 2010, Plant Phys 152(2):541-552.
Complete Transcriptome of the Soybean Root Hair Cell, a Single-Cell Model,
and Its Alteration in Response to Bradyrhizobium japonicum Infection
Severin et al. 2010, BMC Plant Biology 10:160
RNA-Seq Atlas of Glycine max: A guide to the soybean transcriptome
Danzer et al. 2015, Plant Phys 168(3):1025-10352.
> Down-Regulating the Expression of 53 Soybean Transcription Factor Genes Uncovers a Role for SPEECHLESS in Initiating Stomatal Cell Lineages During Embryo Development

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All values in RPMK or FPMK

GSE117686

Williams 82 unifolate 0 hr 4 F cold stressWilliams 82 unifolate 1 hr 4 F cold stressWilliams 82 unifolate 24 hr 4 F cold stress
132, 123, 95117, 79, 83132, 103, 91
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GSE33155

Glaborus Clark shoot tipWild-type Clark shoot tip
0.440.21
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GSE42550

Williams cotyledon stage 1 Williams cotyledon stage 2 Williams cotyledon stage 3 Williams cotyledon stage 4 Williams cotyledon stage 5 Williams cotyledon stage 6 Williams cotyledon stage 7
0.07, 0.320.63, 0.310.65, 0.510.38, 0.330.33, 0.410.25, 0.260.06, 0.26
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GSE42871

Williams 43 100-200 mg seed cotyledon Williams 43 400-500 mg seed cotyledon Williams 43 5-6 mg seed cotyledonWilliams 43 5-6 mg seed seed coatWilliams 43 5-6 mg whole seed Williams 43 dry seed Williams 43 whole seed 12-14 DAF Williams 43 whole seed 22-24 DAF Williams 43 whole seed 4 DAF
0.11, 0.150.08, 0.200.260.29, 0.380, 00, 0.070.01, 0.130, 0.03
Graph this experiment

GSE46096

Williams 82 Early Maturation Stage Axis Parenchyma Williams 82 Early Maturation Stage Axis Vasculature Williams 82 Early Maturation Stage Cotyledon Abaxial Epidermis Williams 82 Early Maturation Stage Cotyledon VasculatureWilliams 82 Early Maturation Stage EndospermWilliams 82 Early Maturation Stage Seed Coat Hilum Williams 82 Early Maturation Stage Seed Coat Hourglass Cells Williams 82 Early Maturation Stage Seed Coat Palisade Williams 82 Early Maturation Stage Seed Coat Parenchyma Williams 82 Early maturation stage embryonic axis SAM Williams 82 Early maturation stage embryonic axis epidermis Williams 82 Early maturation stage embryonic axis plumule Williams 82 Early maturation stage embryonic axis root tipWilliams 82 Early maturation stage embryonic axis stele Williams 82 Early maturation stage embryonic cotyledon abaxial parenchyma Williams 82 Early maturation stage embryonic cotyledon adaxial epidermis Williams 82 Early maturation stage embryonic cotyledon adaxial parenchyma
0, 0, 00, 0, 00, 0, 14, 20, 0, 02, 4, 10, 0, 00, 0, 00, 2, 10, 0, 00, 0, 00, 0, 00, 0, 00, 0, 00, 0, 00, 0, 00, 0, 1
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GSE49097

Hutchesen high vapor pressure deficitHutchesen low vapor pressure deficitPI 416937 high vapor pressure deficitPI 416937 low vapor pressure deficitPI 471938 high vapor pressure deficitPI 471938 low vapor pressure deficit
0.158, 1.7051.193, 3.8010.336, 02.054, 3.2692.255, 0.4620.108, 4.273
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GSE54903

Clark mutant seed coat Clark wild type seed coat Harsoy mutant seed coat Harsoy wild type seed coat
0.98, 0.6, 0.920.33, 1.14, 0.910.43, 0.290.19, 0.63, 1.31
Graph this experiment

GSE57252

Williams 82 Control Williams 82 dehydration 12hr Williams 82 dehydration 1hr Williams 82 dehydration 6hr Williams 82 saline 12hr Williams 82 saline 1hr Williams 82 saline 6hr
114.05, 79.06, 26.2345.28, 21.57, 23.6313.18, 25.51, 22.8510.78, 25.73, 30.190.84, 16.84, 54.6326.65, 17.79, 11.1229.15, 24.69, 30.87
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GSE57349

Williams 82 Globular stage embryo Williams 82 Globular stage endosperm Williams 82 Globular stage seed coat endothelium Williams 82 Globular stage seed coat epidermis Williams 82 Globular stage seed coat hilum Williams 82 Globular stage seed coat inner integument Williams 82 Globular stage seed coat outer integument Williams 82 Globular stage suspensor
0, 0, 00, 0, 00, 0, 00, 0, 0.09987150, 0.0841814, 0.281590, 0.0562142, 0, 00.437496, 0.168821, 0.1630410, 0, 0
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GSE57350

Williams 82 Heart stage embryo Williams 82 Heart stage endosperm Williams 82 Heart stage seed coat endothelium Williams 82 Heart stage seed coat epidermis Williams 82 Heart stage seed coat hilum Williams 82 Heart stage seed coat inner integument Williams 82 Heart stage seed coat outer integument Williams 82 Heart stage suspensor
0, 0, 00.0898873, 0, 00.0852555, 0, 00, 0, 00.0915456, 0.372411, 00, 0.233826, 00.392652, 0.680858, 0.4246660.812288, 0, 0.413561
Graph this experiment

GSE57606

Williams 82 Cotyledon stage embryo Williams 82 Cotyledon stage embryo axis Williams 82 Cotyledon stage embryo cotyledon Williams 82 Cotyledon stage endosperm Williams 82 Cotyledon stage seed coat endothelium Williams 82 Cotyledon stage seed coat epidermis Williams 82 Cotyledon stage seed coat hilum Williams 82 Cotyledon stage seed coat inner integument Williams 82 Cotyledon stage seed coat outer integument Williams 82 Cotyledon stage suspensor
0, 0, 00, 0, 00.0933772, 0.244173, 0.4184450.350637, 0, 00, 0, 00, 0.0858942, 01.32916, 0.946475, 0.485120, 0, 00.999372, 0.537918, 2.665830, 0, 0
Graph this experiment

GSE61857

Williams 82 Cotyledon Stage1Williams 82 Cotyledon Stage2Williams 82 Cotyledon Stage3Williams 82 Leaf Stage1Williams 82 Leaf Stage3Williams 82 Leaf Stage5Williams 82 Leaf Stage7Williams 82 Leaf Stage8
3, 5, 41, 2, 11, 1, 15, 4, 52, 2, 21, 3, 12, 1, 11, 1, 1
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GSE67779

Wyandot resistant NIL 0 hr aphid exposureWyandot resistant NIL 24 hr aphid exposureWyandot resistant NIL 4 hr aphid exposureWyandot resistant NIL 48 hr aphid exposureWyandot resistant NIL 8 hr aphid exposureWyandot susceptible NIL 0 hr aphid exposureWyandot susceptible NIL 24 hr aphid exposureWyandot susceptible NIL 4 hr aphid exposureWyandot susceptible NIL 48 hr aphid exposureWyandot susceptible NIL 8 hr aphid exposure
25, 2119, 2419, 8966, 1780, 12075, 2564, 3888, 4218, 1961, 41
Graph this experiment All values in intensity units
Glyma19g37180 is not represented on the SoyChip

Download query results HERE

Most RNAseq experiments utilized Wm82.a1 gene models whereas all of the Affymetrix SoyChip experiments were mapped to Wm82.a1 gene models. This means that if your query utilized a Wm82.a2 gene model name you probably will receive little to no results. If you did use a Wm82.a2 gene model name (Glyma.01g010000 for example), you will need to convert your Wm82.a2 gene model name to it's Wm82.a1 corresponding name using the SoyBase gene model correspondence tool. Once you have converted your gene model name you can re-run the Expression Explorer page and paste in the Wm82.a1 corresponding gene model ID into the input box on that page.

To convert your gene model ID click the SUBMIT button below






Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA
 
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