Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.1.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0525	0.863
27DAP/17DAP	1.01254	0.926
39DAP/27DAP	0.9368	0.241
41DAP/39DAP	0.92506	0.685
42DAP/41DAP	1.05249	0.929
43DAP/42DAP	1.03813	1
47DAP/43DAP	0.99007	0.949
52DAP/47DAP	0.90917	0.721
57DAP/52DAP	0.9828	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99483	0.743
17DAP/reference	1.01036	0.696
27DAP/reference	1.0625	0.216
39DAP/reference	1.01911	0.545
41DAP/reference	1.01389	0.624
42DAP/reference	0.90247	0.218
43DAP/reference	0.98088	0.763
47DAP/reference	1.00097	1
52DAP/reference	0.95462	0.416
57DAP/reference	0.93058	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04187	0.581
27DAP/17DAP	0.98039	0.887
39DAP/27DAP	1.00599	0.832
41DAP/39DAP	0.96794	0.781
42DAP/41DAP	0.97897	0.772
43DAP/42DAP	1.09846	0.021
47DAP/43DAP	1.01489	0.906
52DAP/47DAP	0.96392	0.801
57DAP/52DAP	0.90265	0.283
57DAP/7DAP	0.97362	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89605	0.168
17DAP/reference	0.88953	0.016
27DAP/reference	0.76543	0.01
39DAP/reference	0.91629	0.027
41DAP/reference	0.90337	0.044
42DAP/reference	0.89812	0.063
43DAP/reference	0.82585	0.011
47DAP/reference	0.85038	0.168
52DAP/reference	0.81827	0.027
57DAP/reference	0.85759	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95504	0.518
17DAP/reference	0.87017	0.164
27DAP/reference	1.10474	0.822
39DAP/reference	0.8539
41DAP/reference	0.98526	0.531
42DAP/reference	0.93516	0.081
43DAP/reference	0.91019	0.206
47DAP/reference	0.94899	0.246
52DAP/reference	0.94902	0.537
57DAP/reference	0.9203	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95692	0.362
17DAP/reference	0.96197	0.389
27DAP/reference	0.86008	0.029
39DAP/reference	0.93781	0.246
41DAP/reference	0.95528	0.417
42DAP/reference	0.864	0.041
43DAP/reference	0.9029	0.064
47DAP/reference	1.03398	0.68
52DAP/reference	0.84055	0.153
57DAP/reference	0.92885	0.283

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00643	0.966
26DAP/20DAP	0.91674	1
34DAP/26DAP	1.0535	0.542
51DAP/34DAP	1.04844	0.706
52DAP/51DAP	0.9339
53DAP/52DAP	0.99448	0.99
55DAP/53DAP	1.08945	0.681
57DAP/55DAP	1.22419	0.424
62DAP/57DAP	0.96213	0.994
68DAP/62DAP	1.02237	1
68DAP/14DAP	1.19249	0.384

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.84199	0.03

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.38643	0.287
Mature Green Tomato/Ripe Tomato	0.70943	0.066
Immature Eggplant/Mature Eggplant	1.06889	0.58
Ripe Pepper/Ripe Tomato	0.72188	0.293
Mature Eggplant/Ripe Tomato	1.33186	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96204	0.944
1-1-2/M82	1.02449	1
12-2/M82	0.98014	0.955
12-4/M82	1.06637	0.611
1-3/M82	0.99486	1
2-1-1/M82	0.8638	0.465
2-1/M82	1.03077	1
2-6/M82	0.92918	1
3-2/M82	1.04582	1
4-1-1/M82	1.09046	1
4-1/M82	1.03862	1
4-3-2/M82	0.92762	1
4-3/M82	1.06834	1
5-3/M82	1.10984	1
6-2/M82	1.08106	1
6-3/M82	1.06743	1
7-1/M82	1.01583	1
7-2/M82	0.91098	0.881
9-3-2/M82	0.94784	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95523
IL2-6/WTpooled	0.9559	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.05862	1
IL12-4/WTpooled	0.89249	1
IL1-4/WTpooled	0.95938	0.444
WT/WTpooled	1.02404	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	0.98143	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97543	1
DC3000/delta hrp 6h	1.15605	1
DC3000/delta hrp 12h	1.17893	1
DC3000/delta hrp 24h	0.96332	0.818

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94417	0.413
DC3000 delta B/DC3000 delta AB	0.89239	0.129

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95307	1
Exp 36h	0.72665	0.504
Exp 60h	0.60383	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97813	1
Var 0h	0.97401	0.933
Var 12h I row2-row1	1.08095	0.348
Var 12h NI row2-row1	0.88378	0.494
Var 36h I row2-row1	1.08876	1
Var 36h NI row2-row1	1.01138	1
Var 60h I row2-row1	1.15916	0.543
Var 60h NI row2-row1	1.24494	0.904
Time course 0hI-0hNI	1.04897	0.833
Time course 12hI-12hNI	0.94302	0.426
Time course 36hI-36hNI	0.97809	0.352
Time course 60hI-60hNI	0.81812	0.015

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)	0.93371	0.391
transgenic ySAMdc/azygous control (breaker)	1.373	0.248
transgenic ySAMdc/azygous control (red)	1.17128	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95323	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.11539	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.81848	0.09
Manapal/WT (break)	1.27567	0.381
Manapal/WT (red)	1.26756	0.137