Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.8.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16058	0.561
27DAP/17DAP	1.06857	0.883
39DAP/27DAP	0.75733	0.458
41DAP/39DAP	1.44811	0.323
42DAP/41DAP	1.0726	0.912
43DAP/42DAP	0.90773	0.833
47DAP/43DAP	1.07083	0.609
52DAP/47DAP	1.19188	0.721
57DAP/52DAP	0.91165	0.796

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01308	1
17DAP/reference	1.0149	0.843
27DAP/reference	0.98327	0.595
39DAP/reference	1.05912	0.413
41DAP/reference	0.97728	0.667
42DAP/reference	0.94441	0.069
43DAP/reference	1.02452	0.838
47DAP/reference	0.91179	0.013
52DAP/reference	0.88452	0.096
57DAP/reference	0.94624	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02834	0.719
27DAP/17DAP	1.22835	0.167
39DAP/27DAP	0.95103	0.54
41DAP/39DAP	0.94214	0.822
42DAP/41DAP	1.21115	0.124
43DAP/42DAP	0.85901	0.058
47DAP/43DAP	1.16488	0.03
52DAP/47DAP	0.79516	0.047
57DAP/52DAP	0.91399	0.399
57DAP/7DAP	0.98089	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85496	0.168
17DAP/reference	0.80252	0.021
27DAP/reference	0.74204	0.019
39DAP/reference	0.83152	0.031
41DAP/reference	0.87055	0.073
42DAP/reference	0.81937	0.046
43DAP/reference	0.69604	0.011
47DAP/reference	1.02572	1
52DAP/reference	0.75757	0.021
57DAP/reference	0.87302	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02866	0.62
17DAP/reference	0.89129	0.047
27DAP/reference	0.86572	0.115
39DAP/reference	0.93033	0.202
41DAP/reference	0.90787	0.183
42DAP/reference	0.91718	0.046
43DAP/reference	0.91234	0.243
47DAP/reference	0.99003	0.625
52DAP/reference	0.92437	0.156
57DAP/reference	0.95648	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74238	0.036
17DAP/reference	1.02374	0.886
27DAP/reference	0.79388	0.052
39DAP/reference	0.78779	0.019
41DAP/reference	0.80472	0.033
42DAP/reference	0.70992	0.015
43DAP/reference	0.82054	0.022
47DAP/reference	0.97546	0.509
52DAP/reference	0.75712	0.123
57DAP/reference	0.88699	0.177

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01126	1
26DAP/20DAP	0.86073	0.151
34DAP/26DAP	1.06073	1
51DAP/34DAP	1.1441	0.524
52DAP/51DAP	1.00985	0.954
53DAP/52DAP	1.1257	0.166
55DAP/53DAP	0.93011	0.478
57DAP/55DAP	1.09484	0.474
62DAP/57DAP	0.9549	0.681
68DAP/62DAP	1.16012	0.672
68DAP/14DAP	1.00213	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.41532	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.86455	0.351
Mature Green Tomato/Ripe Tomato	1.13994	0.478
Immature Eggplant/Mature Eggplant	1.18667	0.074
Ripe Pepper/Ripe Tomato	0.37548	0.224
Mature Eggplant/Ripe Tomato	0.38806	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10985	0.742
1-1-2/M82	1.06993	1
12-2/M82	1.03679	1
12-4/M82	0.96996	0.619
1-3/M82	1.03064	1
2-1-1/M82	0.99034	0.92
2-1/M82	0.94516	0.74
2-6/M82	1.03214	1
3-2/M82	0.85498	0.752
4-1-1/M82	1.01458	1
4-1/M82	0.62831	1
4-3-2/M82	1.06044	1
4-3/M82	1.02234	1
5-3/M82	1.03389	1
6-2/M82	1.03392	1
6-3/M82	0.98935	1
7-1/M82	0.98627	1
7-2/M82	1.0626	0.318
9-3-2/M82	0.93214	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02965	0.493
IL2-6/WTpooled	2.61876	0.427
IL7-5/WTpooled	1.22526	1
IL7-3/WTpooled	0.56634	0.298
IL12-4/WTpooled	0.88953	1
IL1-4/WTpooled	1.11083	1
WT/WTpooled	1.06808	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	1.13972	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93636	1
DC3000/delta hrp 6h	1.03025	1
DC3000/delta hrp 12h	1.01261	1
DC3000/delta hrp 24h	1.11616	0.308

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.41112	0.355
DC3000 delta B/DC3000 delta AB	0.99165	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03568	1
Exp 36h	1.4255	0.693
Exp 60h	1.2724	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02511	1
Var 0h	0.40332	0.457
Var 12h I row2-row1	1.02745	0.654
Var 12h NI row2-row1	0.96522	0.906
Var 36h I row2-row1	1.06828	1
Var 36h NI row2-row1	1.04403	1
Var 60h I row2-row1	1.03009	1
Var 60h NI row2-row1	1.15042	0.904
Time course 0hI-0hNI	1.02421	0.833
Time course 12hI-12hNI	1.0238	0.743
Time course 36hI-36hNI	0.93997	0.284
Time course 60hI-60hNI	0.99128	1

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)	1.00684	1
transgenic ySAMdc/azygous control (breaker)	1.0447	1
transgenic ySAMdc/azygous control (red)	0.90527	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01843	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08556	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8833	1
Manapal/WT (break)	1.00194	1
Manapal/WT (red)	1.11802	0.413