Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.10.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96228	0.728
27DAP/17DAP	1.03785	0.89
39DAP/27DAP	0.82498	0.447
41DAP/39DAP	1.07995	0.584
42DAP/41DAP	0.96804	1
43DAP/42DAP	0.96007	0.877
47DAP/43DAP	0.97987	0.902
52DAP/47DAP	1.02699	0.957
57DAP/52DAP	0.93454	0.824

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96326	0.254
17DAP/reference	1.00843	0.813
27DAP/reference	1.01147	0.909
39DAP/reference	1.04923	0.318
41DAP/reference	1.05199	0.587
42DAP/reference	1.00535	1
43DAP/reference	1.0119	0.758
47DAP/reference	1.05225	0.353
52DAP/reference	1.08854	0.476
57DAP/reference	1.11673	0.052

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17045	0.525
27DAP/17DAP	0.93061	0.748
39DAP/27DAP	1.09199	0.483
41DAP/39DAP	1.06135	0.682
42DAP/41DAP	1.05191	1
43DAP/42DAP	1.07966	0.23
47DAP/43DAP	0.98831	0.983
52DAP/47DAP	1.06913	0.831
57DAP/52DAP	0.92656	0.564
57DAP/7DAP	0.82169	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81664	0.08
17DAP/reference	0.87007	0.02
27DAP/reference	0.96644	0.325
39DAP/reference	0.90038	0.034
41DAP/reference	0.87105	0.056
42DAP/reference	0.89145	0.046
43DAP/reference	0.84233	0.032
47DAP/reference	0.8631	0.079
52DAP/reference	0.80771	0.015
57DAP/reference	0.86629	0.022

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03816	0.47
17DAP/reference	1.01334	0.839
27DAP/reference	1.01632	0.917
39DAP/reference	0.97789	0.348
41DAP/reference	0.91253	0.121
42DAP/reference	0.95961	0.169
43DAP/reference	1.12209	0.313
47DAP/reference	0.98705	0.512
52DAP/reference	0.98765	0.5
57DAP/reference	1.03629	0.654

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85203	0.087
17DAP/reference	1.01656	0.842
27DAP/reference	0.94377	0.337
39DAP/reference	0.84292	0.021
41DAP/reference	0.95407	0.132
42DAP/reference	0.96314	0.361
43DAP/reference	0.86196	0.038
47DAP/reference	0.96986	0.357
52DAP/reference	0.88855	0.223
57DAP/reference	0.93888	0.165

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96071	1
26DAP/20DAP	0.96258	0.512
34DAP/26DAP	1.00982	1
51DAP/34DAP	1.01343	0.925
52DAP/51DAP	0.97126	1
53DAP/52DAP	0.96725	0.891
55DAP/53DAP	1.06406	0.898
57DAP/55DAP	1.45849	0.376
62DAP/57DAP	0.91591	0.466
68DAP/62DAP	1.03715	0.885
68DAP/14DAP	0.98675	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92037	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.80706	0.261
Mature Green Tomato/Ripe Tomato	0.39823
Immature Eggplant/Mature Eggplant	1.33672	0.058
Ripe Pepper/Ripe Tomato	1.93865	0.256
Mature Eggplant/Ripe Tomato	1.36009	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94264	0.605
1-1-2/M82	1.01443	1
12-2/M82	1.05955	1
12-4/M82	0.97721	1
1-3/M82	1.07297	0.479
2-1-1/M82	1.03604	1
2-1/M82	1.01117	1
2-6/M82	1.0334	1
3-2/M82	0.90996	1
4-1-1/M82	0.93799	1
4-1/M82	0.95043	1
4-3-2/M82	1.01452	1
4-3/M82	1.27297	1
5-3/M82	1.06796	1
6-2/M82	N/A	N/A
6-3/M82	0.97246
7-1/M82	0.96131	1
7-2/M82	1.07306	0.385
9-3-2/M82	0.9688	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.6989	0.243
IL2-6/WTpooled	0.84466	0.473
IL7-5/WTpooled	0.89257	1
IL7-3/WTpooled	0.44671	0.298
IL12-4/WTpooled	0.92907	1
IL1-4/WTpooled	0.66267	0.444
WT/WTpooled	1.04715	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	0.96418	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9947	1
DC3000/delta hrp 6h	1.05217	1
DC3000/delta hrp 12h	1.00599	1
DC3000/delta hrp 24h	1.09278	0.502

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.25698	0.042
DC3000 delta B/DC3000 delta AB	1.27808	0.167

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08157	1
Exp 36h	1.3644	0.693
Exp 60h	1.4415	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01316	1
Var 0h	0.52136	0.98
Var 12h I row2-row1	0.97811	0.948
Var 12h NI row2-row1	0.9076	0.713
Var 36h I row2-row1	1.04058	1
Var 36h NI row2-row1	0.98764	0.852
Var 60h I row2-row1	0.87948	0.306
Var 60h NI row2-row1	1.02308	1
Time course 0hI-0hNI	1.00597	1
Time course 12hI-12hNI	1.03704	0.746
Time course 36hI-36hNI	1.20967	0.063
Time course 60hI-60hNI	1.4242	0.008

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)	0.96469	0.454
transgenic ySAMdc/azygous control (breaker)	0.93585	0.49
transgenic ySAMdc/azygous control (red)	0.98931	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.951	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86747	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90521	1
Manapal/WT (break)	0.853	0.333
Manapal/WT (red)	1.21429	1