Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.15.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92896	0.617
27DAP/17DAP	0.84873	0.626
39DAP/27DAP	1.33534	0.32
41DAP/39DAP	0.98477	0.868
42DAP/41DAP	1.01973	1
43DAP/42DAP	1.24732	0.991
47DAP/43DAP	0.8861	0.595
52DAP/47DAP	0.92446	0.677
57DAP/52DAP	1.22375	0.941

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8809	0.074
17DAP/reference	0.84112	0.021
27DAP/reference	0.93861	0.385
39DAP/reference	0.89358	0.184
41DAP/reference	0.71372	0.008
42DAP/reference	0.8511	0.005
43DAP/reference	0.94875	0.36
47DAP/reference	0.9162	0.127
52DAP/reference	1.12846	0.476
57DAP/reference	1.23084	0.043

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81247	0.201
27DAP/17DAP	1.26126	0.287
39DAP/27DAP	0.97462	0.821
41DAP/39DAP	1.06602	0.849
42DAP/41DAP	0.8856	0.353
43DAP/42DAP	1.09807	0.554
47DAP/43DAP	1.01756	0.977
52DAP/47DAP	1.0022	0.941
57DAP/52DAP	1.31605	0.372
57DAP/7DAP	0.86502	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07488	0.472
17DAP/reference	1.10801	0.162
27DAP/reference	0.90656	0.076
39DAP/reference	1.23862	0.013
41DAP/reference	1.09696	0.191
42DAP/reference	1.0734	0.308
43DAP/reference	1.18237	0.07
47DAP/reference	1.05268	0.659
52DAP/reference	1.07399	0.459
57DAP/reference	1.15828	0.07

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90251	0.318
17DAP/reference	0.86826	0.099
27DAP/reference	0.9049	0.181
39DAP/reference	0.86424	0.013
41DAP/reference	0.8975	0.156
42DAP/reference	0.82239	0.061
43DAP/reference	0.7143	0.02
47DAP/reference	0.74951	0.037
52DAP/reference	0.90757	0.078
57DAP/reference	0.78501	0.028

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97008	0.455
17DAP/reference	0.95968	0.537
27DAP/reference	1.49637	0.51
39DAP/reference	0.92254	0.101
41DAP/reference	1.09449	0.265
42DAP/reference	1.06009	0.671
43DAP/reference	0.94436	0.256
47DAP/reference	0.92873	0.296
52DAP/reference	0.97645	0.663
57DAP/reference	1.2071	0.049

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28832	0.916
26DAP/20DAP	0.80522	0.512
34DAP/26DAP	1.05128	1
51DAP/34DAP	0.9242	0.674
52DAP/51DAP	1.05352	0.842
53DAP/52DAP	0.94112	0.75
55DAP/53DAP	1.19988	0.29
57DAP/55DAP	0.92007	0.633
62DAP/57DAP	1.1567	0.723
68DAP/62DAP	1.13016	0.931
68DAP/14DAP	1.52997	0.146

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92381	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.68478	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.394	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00801	1
1-1-2/M82	0.82627
12-2/M82	0.8195	0.955
12-4/M82	1.05298	1
1-3/M82	0.84892	0.378
2-1-1/M82	1.18828
2-1/M82	N/A	N/A
2-6/M82	1.05069	0.695
3-2/M82	0.93292
4-1-1/M82	1.04517	1
4-1/M82	1.28102
4-3-2/M82	1.07552
4-3/M82	0.69095	0.578
5-3/M82	1.02507	1
6-2/M82	N/A	N/A
6-3/M82	1.52841
7-1/M82	1.19105
7-2/M82	0.88821	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95248	1
IL2-6/WTpooled	0.98769	1
IL7-5/WTpooled	0.59177	1
IL7-3/WTpooled	1.40254	0.362
IL12-4/WTpooled	1.40279	0.367
IL1-4/WTpooled	1.03369	1
WT/WTpooled	0.94256	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	N/A	N/A

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94106	1
DC3000/delta hrp 6h	0.92799	0.95
DC3000/delta hrp 12h	0.95126	1
DC3000/delta hrp 24h	1.27014	0.165

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.84686	0.162

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01959	1
Exp 36h	0.89654	0.749
Exp 60h	0.9675	0.994

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.95751	1
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.81099
Var 36h NI row2-row1	1.26182	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.69163
Time course 0hI-0hNI	0.87135	0.438
Time course 12hI-12hNI	0.83593	0.05
Time course 36hI-36hNI	0.80091	0.26
Time course 60hI-60hNI	0.2017	0.005

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.96084	0.722
transgenic ySAMdc/azygous control (breaker)	0.92885	0.49
transgenic ySAMdc/azygous control (red)	1.02416	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.15121	0.026

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.36893	0.233

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69952	0.172
Manapal/WT (break)	0.93233	1
Manapal/WT (red)	0.69908	0.242