Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.20.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09572	0.725
27DAP/17DAP	0.90007	0.609
39DAP/27DAP	1.25585	0.816
41DAP/39DAP	0.78177	0.34
42DAP/41DAP	1.02141	1
43DAP/42DAP	0.94191	0.877
47DAP/43DAP	1.14244	0.68
52DAP/47DAP	1.8519	0.444
57DAP/52DAP	1.28131	0.859

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0971	0.116
17DAP/reference	1.00546	0.813
27DAP/reference	0.99705	0.867
39DAP/reference	1.04828	0.377
41DAP/reference	0.9816	0.814
42DAP/reference	1.05887	0.072
43DAP/reference	0.99591	0.882
47DAP/reference	1.01922	0.612
52DAP/reference	1.00075	1
57DAP/reference	1.06747	0.379

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00807	1
27DAP/17DAP	1.02997	0.9
39DAP/27DAP	1.03721	0.565
41DAP/39DAP	1.03198	0.849
42DAP/41DAP	1.02947	0.763
43DAP/42DAP	0.99754	1
47DAP/43DAP	1.03373	0.699
52DAP/47DAP	0.96102	0.66
57DAP/52DAP	1.00914	0.997
57DAP/7DAP	0.98807	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94122	0.076
17DAP/reference	0.91802	0.025
27DAP/reference	0.89495	0.01
39DAP/reference	1.01983	0.486
41DAP/reference	1.01198	0.949
42DAP/reference	0.99296	0.675
43DAP/reference	0.97007	0.279
47DAP/reference	0.9664	0.293
52DAP/reference	1.08685	0.563
57DAP/reference	1.05852	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99871	0.97
17DAP/reference	1.00424	1
27DAP/reference	1.00855	1
39DAP/reference	0.94436	0.214
41DAP/reference	0.94704	0.16
42DAP/reference	1.0188	0.915
43DAP/reference	0.98103	0.607
47DAP/reference	0.98612	0.5
52DAP/reference	0.96698	0.327
57DAP/reference	0.9308	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92204	0.104
17DAP/reference	0.9934	0.763
27DAP/reference	0.95298	0.053
39DAP/reference	0.9765	0.36
41DAP/reference	0.97545	0.293
42DAP/reference	0.91405	0.036
43DAP/reference	0.90548	0.052
47DAP/reference	1.01952	0.792
52DAP/reference	0.91369	0.177
57DAP/reference	0.93875	0.049

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02033	0.966
26DAP/20DAP	0.97327	1
34DAP/26DAP	1.00949	1
51DAP/34DAP	0.99295	0.924
52DAP/51DAP	0.98644	1
53DAP/52DAP	1.01156	1
55DAP/53DAP	0.98472	0.852
57DAP/55DAP	0.91243	0.587
62DAP/57DAP	0.9843	0.994
68DAP/62DAP	1.02385	1
68DAP/14DAP	0.99161	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95425	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.31086	0.417
Mature Green Tomato/Ripe Tomato	0.88205
Immature Eggplant/Mature Eggplant	1.49063
Ripe Pepper/Ripe Tomato	0.96407	1
Mature Eggplant/Ripe Tomato	1.11293	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91404	0.934
1-1-2/M82	0.97894	0.804
12-2/M82	0.93819	0.955
12-4/M82	0.97166	1
1-3/M82	0.98047	1
2-1-1/M82	0.98482	0.92
2-1/M82	1.08396	1
2-6/M82	0.94268	1
3-2/M82	1.01799
4-1-1/M82	1.06336	1
4-1/M82	0.99378
4-3-2/M82	0.93025
4-3/M82	1.00879	1
5-3/M82	0.99824	1
6-2/M82	1.04871	1
6-3/M82	1.09527	1
7-1/M82	0.93664	1
7-2/M82	0.92147	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

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

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	0.99165	1
DC3000/delta hrp 6h	0.99554	0.95
DC3000/delta hrp 12h	1.05821	1
DC3000/delta hrp 24h	0.88984	0.269

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07921	0.441
DC3000 delta B/DC3000 delta AB	1.03501	0.544

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06477	0.254
Exp 36h	N/A	N/A
Exp 60h	1.03922	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00213	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.24609	0.222
Var 12h NI row2-row1	1.06029	1
Var 36h I row2-row1	1.04364	1
Var 36h NI row2-row1	0.96554	0.791
Var 60h I row2-row1	0.92957	0.582
Var 60h NI row2-row1	1.08531	0.904
Time course 0hI-0hNI	1.09097	0.852
Time course 12hI-12hNI	1.06786	0.741
Time course 36hI-36hNI	0.97233	0.533
Time course 60hI-60hNI	1.29872	0.033

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)	0.88747	0.338
transgenic ySAMdc/azygous control (breaker)	1.16613	0.248
transgenic ySAMdc/azygous control (red)	1.16464	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98395	0.133

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.35692	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94163	1
Manapal/WT (break)	0.9742	1
Manapal/WT (red)	0.66957	0.183