Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.19.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07247	0.932
27DAP/17DAP	1.31482	0.784
39DAP/27DAP	0.79551	0.482
41DAP/39DAP	0.91613	0.72
42DAP/41DAP	1.01417	1
43DAP/42DAP	1.20664	0.899
47DAP/43DAP	0.92078	0.693
52DAP/47DAP	0.9197	0.736
57DAP/52DAP	0.96411	0.949

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96583	0.379
17DAP/reference	1.08957	0.306
27DAP/reference	0.96372	0.581
39DAP/reference	0.97859	0.734
41DAP/reference	0.99283	0.814
42DAP/reference	0.91597	0.03
43DAP/reference	0.9821	0.745
47DAP/reference	0.91215	0.083
52DAP/reference	0.83164	0.075
57DAP/reference	0.83824	0.03

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32649	0.07
27DAP/17DAP	1.05725	0.957
39DAP/27DAP	1.22116	0.275
41DAP/39DAP	1.04377	0.807
42DAP/41DAP	0.88788	0.322
43DAP/42DAP	0.75761	0.06
47DAP/43DAP	0.96727	0.843
52DAP/47DAP	1.04244	0.965
57DAP/52DAP	1.29999	0.286
57DAP/7DAP	1.38576	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96619	0.495
17DAP/reference	0.87676	0.064
27DAP/reference	0.75539	0.017
39DAP/reference	0.84217	0.17
41DAP/reference	0.91846	0.259
42DAP/reference	0.79755	0.05
43DAP/reference	1.06468	1
47DAP/reference	0.8896	0.101
52DAP/reference	0.85398	0.049
57DAP/reference	0.98656	0.569

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91364	0.329
17DAP/reference	0.83769	0.036
27DAP/reference	0.78814	0.05
39DAP/reference	0.89102	0.099
41DAP/reference	0.87913	0.076
42DAP/reference	0.76591	0.03
43DAP/reference	1.00718	0.748
47DAP/reference	0.9216	0.102
52DAP/reference	0.92511	0.111
57DAP/reference	1.0722	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99563	0.699
17DAP/reference	0.98212	0.696
27DAP/reference	0.83155	0.043
39DAP/reference	0.8347	0.058
41DAP/reference	0.80709	0.331
42DAP/reference	0.89571	0.287
43DAP/reference	0.86442	0.237
47DAP/reference	0.9066	0.231
52DAP/reference	1.0385	0.779
57DAP/reference	0.79805	0.044

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11145	0.966
26DAP/20DAP	1.48813	0.101
34DAP/26DAP	0.96066	0.954
51DAP/34DAP	1.00439	0.937
52DAP/51DAP	0.95782	1
53DAP/52DAP	1.0683	0.998
55DAP/53DAP	0.97117	0.761
57DAP/55DAP	0.95245	0.638
62DAP/57DAP	1.03182	0.723
68DAP/62DAP	0.9632	0.787
68DAP/14DAP	0.68988	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83222	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.27743	0.15
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	3.19308	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.12827
1-1-2/M82	1.14961
12-2/M82	N/A	N/A
12-4/M82	0.99334	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.13286	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.97319
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88583
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.82022
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	1.0794

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	0.86747	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10567	1
DC3000/delta hrp 6h	0.82376	0.95
DC3000/delta hrp 12h	0.98812	1
DC3000/delta hrp 24h	0.94513	0.736

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92107	1
Exp 36h	1.04489	1
Exp 60h	0.96168	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97212	1
Var 0h	0.99245	1
Var 12h I row2-row1	1.11811	0.654
Var 12h NI row2-row1	0.77166	0.713
Var 36h I row2-row1	1.02085	1
Var 36h NI row2-row1	1.32742	1
Var 60h I row2-row1	1.00359	1
Var 60h NI row2-row1	1.17738	0.904
Time course 0hI-0hNI	0.9513	0.709
Time course 12hI-12hNI	0.8825	0.42
Time course 36hI-36hNI	0.9618	0.366
Time course 60hI-60hNI	1.05302	0.115

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)	0.92428	0.391
transgenic ySAMdc/azygous control (breaker)	0.76309	0.118
transgenic ySAMdc/azygous control (red)	0.98742	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03804	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97941	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11409	0.307
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.07383	0.413