Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.1.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87532	0.558
27DAP/17DAP	0.77689	0.517
39DAP/27DAP	1.00774	0.876
41DAP/39DAP	1.9934	0.67
42DAP/41DAP	1.29537	0.792
43DAP/42DAP	1.23852	0.867
47DAP/43DAP	1.22882	0.618
52DAP/47DAP	1.06532	0.918
57DAP/52DAP	0.53252	0.462

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98194	0.589
17DAP/reference	1.01453	0.874
27DAP/reference	0.96013	0.359
39DAP/reference	0.97183	0.541
41DAP/reference	0.9777	0.542
42DAP/reference	1.10761	0.041
43DAP/reference	0.99493	0.882
47DAP/reference	1.08156	0.175
52DAP/reference	0.86958	0.183
57DAP/reference	0.94471	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0134	0.847
27DAP/17DAP	0.87038	0.1
39DAP/27DAP	0.74821	0.029
41DAP/39DAP	1.085	0.79
42DAP/41DAP	1.2179	0.011
43DAP/42DAP	1.07956	0.554
47DAP/43DAP	0.9686	0.861
52DAP/47DAP	2.09862	0.048
57DAP/52DAP	2.00739	0.068
57DAP/7DAP	1.75131	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79316	0.108
17DAP/reference	0.80022	0.016
27DAP/reference	0.69917	0.01
39DAP/reference	0.78887	0.012
41DAP/reference	0.84315	0.026
42DAP/reference	0.73268	0.01
43DAP/reference	0.75894	0.011
47DAP/reference	0.7715	0.066
52DAP/reference	0.73757	0.028
57DAP/reference	0.76526	0.037

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06065	0.416
17DAP/reference	1.03259	0.557
27DAP/reference	1.04296	0.67
39DAP/reference	1.0121	1
41DAP/reference	1.05094	0.799
42DAP/reference	0.97413	0.433
43DAP/reference	1.04842	0.624
47DAP/reference	0.98334	0.473
52DAP/reference	1.14072	0.027
57DAP/reference	1.11155	0.101

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7481	0.033
17DAP/reference	0.85882	0.144
27DAP/reference	0.75203	0.044
39DAP/reference	0.6776	0.009
41DAP/reference	0.81819	0.019
42DAP/reference	0.65994	0.015
43DAP/reference	0.8146	0.052
47DAP/reference	0.94158	0.199
52DAP/reference	0.67424	0.082
57DAP/reference	0.69409	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02953	0.966
26DAP/20DAP	2.02045	0.46
34DAP/26DAP	2.83801	1
51DAP/34DAP	1.68042	1
52DAP/51DAP	5.60248	0.035
53DAP/52DAP	0.64966	0.049
55DAP/53DAP	1.67036	0.039
57DAP/55DAP	0.51497	0.045
62DAP/57DAP	0.97516	1
68DAP/62DAP	0.90105	0.787
68DAP/14DAP	0.9335	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.23553	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.67463	0.058
Mature Green Tomato/Ripe Tomato	0.3654	0.017
Immature Eggplant/Mature Eggplant	0.92516	0.448
Ripe Pepper/Ripe Tomato	0.51337	0.224
Mature Eggplant/Ripe Tomato	0.68645	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98618	0.961
1-1-2/M82	1.13558	1
12-2/M82	0.93195	0.74
12-4/M82	1.29779	1
1-3/M82	0.98905	1
2-1-1/M82	1.13382	0.689
2-1/M82	1.08181	1
2-6/M82	0.95449	1
3-2/M82	1.54233	0.717
4-1-1/M82	1.11491	1
4-1/M82	0.89324
4-3-2/M82	1.42801	0.241
4-3/M82	1.03729	1
5-3/M82	1.01406	1
6-2/M82	1.03332	1
6-3/M82	0.99724	1
7-1/M82	1.11249	1
7-2/M82	0.95876	0.599
9-3-2/M82	0.98957	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12251	1
IL2-6/WTpooled	0.69947
IL7-5/WTpooled	0.85166
IL7-3/WTpooled	1.09911	1
IL12-4/WTpooled	0.8274	1
IL1-4/WTpooled	1.27239	1
WT/WTpooled	1.05517	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	1.42909	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93747	1
DC3000/delta hrp 6h	1.00552	1
DC3000/delta hrp 12h	0.97351	1
DC3000/delta hrp 24h	0.94665	0.564

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.55545	0.05
DC3000 delta B/DC3000 delta AB	1.52555	0.101

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91047	1
Exp 36h	0.98281	1
Exp 60h	1.03902	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01142	1
Var 0h	1.03951	0.936
Var 12h I row2-row1	0.7573	0.514
Var 12h NI row2-row1	1.06938	1
Var 36h I row2-row1	1.33795	0.368
Var 36h NI row2-row1	2.43264	1
Var 60h I row2-row1	0.82312	0.285
Var 60h NI row2-row1	1.00452	1
Time course 0hI-0hNI	0.87103	0.294
Time course 12hI-12hNI	0.99156	0.909
Time course 36hI-36hNI	0.81015	0.129
Time course 60hI-60hNI	0.46328	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)	1.1181	0.287
transgenic ySAMdc/azygous control (breaker)	0.8876	0.49
transgenic ySAMdc/azygous control (red)	1.09762	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95649	0.092

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.20916	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96295	1
Manapal/WT (break)	1.04354	1
Manapal/WT (red)	0.88359	0.181