Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.3.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26441	0.359
27DAP/17DAP	1.19279	0.793
39DAP/27DAP	1.0038	0.899
41DAP/39DAP	1.06863	0.964
42DAP/41DAP	1.12497	0.868
43DAP/42DAP	1.33947	0.349
47DAP/43DAP	1.11052	0.727
52DAP/47DAP	0.92775	0.765
57DAP/52DAP	1.53546	0.567

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10373	0.116
17DAP/reference	0.9759	0.701
27DAP/reference	0.90805	0.457
39DAP/reference	0.68754	0.01
41DAP/reference	0.88801	0.114
42DAP/reference	1.36735	0.011
43DAP/reference	0.72935	0.48
47DAP/reference	1.39352	0.002
52DAP/reference	1.34728	0.008
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36063	0.109
27DAP/17DAP	0.83384	0.259
39DAP/27DAP	1.20699	0.205
41DAP/39DAP	1.00022	1
42DAP/41DAP	1.05305	0.675
43DAP/42DAP	1.15655	0.019
47DAP/43DAP	1.02052	0.934
52DAP/47DAP	0.93044	0.603
57DAP/52DAP	1.12351	0.421
57DAP/7DAP	1.30488	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98144	0.613
17DAP/reference	1.11275	0.328
27DAP/reference	0.87826	0.215
39DAP/reference	1.1072	1
41DAP/reference	1.06935	0.655
42DAP/reference	0.86102	0.211
43DAP/reference	1.11685	1
47DAP/reference	1.61728	0.027
52DAP/reference	1.11748	0.941
57DAP/reference	1.58093	0.654

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86614	0.083
17DAP/reference	0.94048	0.499
27DAP/reference	1.17615	0.316
39DAP/reference	1.30047	0.011
41DAP/reference	1.55944	0.005
42DAP/reference	1.23247	0.045
43DAP/reference	0.92446	0.43
47DAP/reference	1.23789	0.011
52DAP/reference	1.09762	0.559
57DAP/reference	1.2025	0.353

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87943	0.104
17DAP/reference	0.93365	0.658
27DAP/reference	0.76373
39DAP/reference	1.03512	0.613
41DAP/reference	0.80494	0.371
42DAP/reference	1.26171	0.529
43DAP/reference	1.25871	0.515
47DAP/reference	1.49991	0.008
52DAP/reference	1.55377	0.103
57DAP/reference	1.56238	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28675	0.966
26DAP/20DAP	1.15422	0.875
34DAP/26DAP	1.01656	1
51DAP/34DAP	0.97496	0.807
52DAP/51DAP	0.85427	1
53DAP/52DAP	0.90224	0.553
55DAP/53DAP	0.79793	0.037
57DAP/55DAP	1.33811	0.34
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.28288	0.367
68DAP/14DAP	1.43826	0.119

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.44443	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.58159	0.127
Mature Green Tomato/Ripe Tomato	0.89338	0.226
Immature Eggplant/Mature Eggplant	0.95245	0.72
Ripe Pepper/Ripe Tomato	1.29028	1
Mature Eggplant/Ripe Tomato	0.73071	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92883	0.944
1-1-2/M82	1.14492	0.891
12-2/M82	0.85179	0.727
12-4/M82	0.80966	0.619
1-3/M82	1.83295	0.248
2-1-1/M82	0.83186	0.784
2-1/M82	0.79587	0.74
2-6/M82	0.94496	1
3-2/M82	1.13734	1
4-1-1/M82	0.95571	1
4-1/M82	1.42148	0.853
4-3-2/M82	0.98167	1
4-3/M82	1.13748	1
5-3/M82	1.13542	0.496
6-2/M82	1.12511	0.235
6-3/M82	0.95878	1
7-1/M82	1.21465	0.992
7-2/M82	1.12573	0.385
9-3-2/M82	1.23878	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.74737	0.243
IL2-6/WTpooled	0.76494	0.473
IL7-5/WTpooled	0.93516	1
IL7-3/WTpooled	1.11639	1
IL12-4/WTpooled	1.02199	0.737
IL1-4/WTpooled	0.99503	1
WT/WTpooled	0.99323	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	1.0366	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92628	1
DC3000/delta hrp 6h	0.92643	0.95
DC3000/delta hrp 12h	0.9964	1
DC3000/delta hrp 24h	1.2021	0.085

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.14208

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.77031	1
Exp 36h	1.51464	1
Exp 60h	1.47163	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02125	1
Var 0h	0.93513	1
Var 12h I row2-row1	1.27462	0.379
Var 12h NI row2-row1	0.77297	0.713
Var 36h I row2-row1	0.96902	1
Var 36h NI row2-row1	1.25722	1
Var 60h I row2-row1	0.9589	0.952
Var 60h NI row2-row1	1.00025	1
Time course 0hI-0hNI	1.01052	0.867
Time course 12hI-12hNI	0.97641	0.87
Time course 36hI-36hNI	0.88162	0.211
Time course 60hI-60hNI	0.50178	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)	0.81725	0.299
transgenic ySAMdc/azygous control (breaker)	1.03609	1
transgenic ySAMdc/azygous control (red)	0.98848	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06815	0.35

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.53702	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97861	1
Manapal/WT (break)	1.01212	1
Manapal/WT (red)	1.02028	1