Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.5.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93148	0.61
27DAP/17DAP	0.94313	0.913
39DAP/27DAP	0.87653	0.594
41DAP/39DAP	1.82885	0.261
42DAP/41DAP	1.09455	1
43DAP/42DAP	1.02083	1
47DAP/43DAP	1.03229	0.756
52DAP/47DAP	1.31564	0.538
57DAP/52DAP	0.912	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92511	0.154
17DAP/reference	1.03152	0.696
27DAP/reference	0.98579	0.683
39DAP/reference	0.9135	0.076
41DAP/reference	1.0256	0.808
42DAP/reference	1.03463	0.352
43DAP/reference	1.0155	0.838
47DAP/reference	0.93863	0.083
52DAP/reference	0.97975	0.58
57DAP/reference	0.87009	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83065	0.153
27DAP/17DAP	0.89294	0.124
39DAP/27DAP	1.17431	0.422
41DAP/39DAP	0.99697	0.986
42DAP/41DAP	1.08244	0.795
43DAP/42DAP	0.9795	0.875
47DAP/43DAP	0.91691	0.272
52DAP/47DAP	0.95399	0.834
57DAP/52DAP	1.00305	0.862
57DAP/7DAP	1.18356	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91805
17DAP/reference	0.90858	0.035
27DAP/reference	0.85698	0.01
39DAP/reference	0.95383	0.083
41DAP/reference	0.88431	0.049
42DAP/reference	0.96443	0.275
43DAP/reference	0.95924	0.076
47DAP/reference	0.87036	0.038
52DAP/reference	0.91143	0.033
57DAP/reference	1.00939	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1072	0.091
17DAP/reference	1.00616	1
27DAP/reference	1.08461	0.471
39DAP/reference	1.24038	0.087
41DAP/reference	0.99525	0.584
42DAP/reference	0.99287	0.594
43DAP/reference	1.04781	0.435
47DAP/reference	0.95604	0.184
52DAP/reference	1.01216	0.838
57DAP/reference	1.07069	0.609

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86531	0.087
17DAP/reference	0.94172	0.217
27DAP/reference	0.93508	0.032
39DAP/reference	0.94715	0.069
41DAP/reference	0.8972	0.05
42DAP/reference	0.88778	0.071
43DAP/reference	0.89676	0.037
47DAP/reference	0.94786	0.269
52DAP/reference	0.87856	0.174
57DAP/reference	0.77077	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03519	0.966
26DAP/20DAP	0.82172	0.205
34DAP/26DAP	1.14955	0.819
51DAP/34DAP	1.02694	1
52DAP/51DAP	1.07522	0.792
53DAP/52DAP	1.17195	0.489
55DAP/53DAP	1.06187	0.693
57DAP/55DAP	0.96844	0.863
62DAP/57DAP	5.62818
68DAP/62DAP	0.87105	0.769
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77882	0.057

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.77715	0.287
Immature Eggplant/Mature Eggplant	1.04839	0.683
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94788	0.934
1-1-2/M82	0.91765	1
12-2/M82	0.87143	0.955
12-4/M82	1.00604	1
1-3/M82	0.9247	0.441
2-1-1/M82	0.95298	0.565
2-1/M82	1.15514	1
2-6/M82	0.93364	1
3-2/M82	1.00113	1
4-1-1/M82	0.84153	1
4-1/M82	0.88562	1
4-3-2/M82	1.04044	1
4-3/M82	0.87894	0.72
5-3/M82	1.03753	1
6-2/M82	1.0254	1
6-3/M82	1.0181	1
7-1/M82	0.70792
7-2/M82	0.93689
9-3-2/M82	0.84547	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01994
IL2-6/WTpooled	1.43828	0.395
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.7533
IL12-4/WTpooled	0.99505	1
IL1-4/WTpooled	1.79069	0.426
WT/WTpooled	1.095	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	0.99665	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97054	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.06369	1
DC3000/delta hrp 24h	1.87324	0.047

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.59009	0.042
DC3000 delta B/DC3000 delta AB	1.71523	0.081

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98367	1
Var 0h	1.18007	0.936
Var 12h I row2-row1	1.01789	0.795
Var 12h NI row2-row1	0.88782	0.546
Var 36h I row2-row1	0.9131	0.805
Var 36h NI row2-row1	1.32068	1
Var 60h I row2-row1	1.23723	0.543
Var 60h NI row2-row1	0.98713	1
Time course 0hI-0hNI	0.96656	0.829
Time course 12hI-12hNI	0.94304	0.303
Time course 36hI-36hNI	0.77657	0.023
Time course 60hI-60hNI	0.59993	0.006

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)	1.57205	0.862
transgenic ySAMdc/azygous control (breaker)	1.11939	1
transgenic ySAMdc/azygous control (red)	1.34918	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00602	0.723

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06441	1
Manapal/WT (break)	1.07486	1
Manapal/WT (red)	1.1252	1