Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.1.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79329	0.211
27DAP/17DAP	0.80501	0.478
39DAP/27DAP	1.79625	0.056
41DAP/39DAP	0.61212	0.06
42DAP/41DAP	1.23769	0.745
43DAP/42DAP	0.79146	0.454
47DAP/43DAP	0.94312	0.724
52DAP/47DAP	0.82939	0.548
57DAP/52DAP	1.08105	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.6812	0.028
17DAP/reference	1.13147	0.631
27DAP/reference	0.77527	0.068
39DAP/reference	1.16752	0.413
41DAP/reference	0.95688	0.542
42DAP/reference	1.98156	0.001
43DAP/reference	1.5248	0.01
47DAP/reference	1.46602	0.001
52DAP/reference	0.92563	0.3
57DAP/reference	1.4049	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94765	0.509
27DAP/17DAP	0.99691	0.969
39DAP/27DAP	0.98005	0.925
41DAP/39DAP	1.2964	0.719
42DAP/41DAP	1.03035	0.999
43DAP/42DAP	0.93575	0.308
47DAP/43DAP	0.98349	0.93
52DAP/47DAP	0.73184	0.072
57DAP/52DAP	0.91289	0.551
57DAP/7DAP	0.60485	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.50121	0.205
17DAP/reference	1.1169	0.102
27DAP/reference	0.77031	0.051
39DAP/reference	0.85939	0.146
41DAP/reference	0.991	0.589
42DAP/reference	1.06144	0.686
43DAP/reference	1.00212	0.665
47DAP/reference	1.43256	0.318
52DAP/reference	1.05107	1
57DAP/reference	1.08445	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.61797	0.048
17DAP/reference	1.50637	0.01
27DAP/reference	1.85551	0.017
39DAP/reference	1.61761	0.011
41DAP/reference	1.79248	0.005
42DAP/reference	1.93508	0.008
43DAP/reference	1.34479	0.509
47DAP/reference	1.94193	0.008
52DAP/reference	0.89097	0.156
57DAP/reference	1.20386	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21762	0.631
17DAP/reference	1.36402	0.306
27DAP/reference	1.24041	0.312
39DAP/reference	1.37922	0.026
41DAP/reference	1.1966	0.714
42DAP/reference	1.60594
43DAP/reference	3.62241	0.064
47DAP/reference	1.36177	0.063
52DAP/reference	1.65968	0.098
57DAP/reference	2.28756	0.011

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9659	1
26DAP/20DAP	2.39964	0.097
34DAP/26DAP	0.98924	0.991
51DAP/34DAP	0.64949	0.06
52DAP/51DAP	0.94953	1
53DAP/52DAP	0.84941	0.111
55DAP/53DAP	0.54576	0.017
57DAP/55DAP	1.97361	0.048
62DAP/57DAP	1.89744	0.185
68DAP/62DAP	1.24055	0.345
68DAP/14DAP	0.9377	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.57826	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.77928	0.23
Mature Green Tomato/Ripe Tomato	1.32424	0.044
Immature Eggplant/Mature Eggplant	1.24341	0.116
Ripe Pepper/Ripe Tomato	1.11484	1
Mature Eggplant/Ripe Tomato	0.95181	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99082	1
1-1-2/M82	1.16958	0.977
12-2/M82	1.07893	1
12-4/M82	1.08497	1
1-3/M82	1.40467	0.255
2-1-1/M82	0.99581	1
2-1/M82	0.60129	0.322
2-6/M82	0.96911	1
3-2/M82	0.90552
4-1-1/M82	1.04754	1
4-1/M82	1.17147	0.853
4-3-2/M82	1.75131	0.241
4-3/M82	1.14892	1
5-3/M82	1.04777	1
6-2/M82	0.9177	1
6-3/M82	1.11805	1
7-1/M82	0.99968	1
7-2/M82	0.97767	1
9-3-2/M82	1.23257	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.1054
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.33255	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05944	0.914
DC3000/delta hrp 6h	0.90593	0.95
DC3000/delta hrp 12h	0.97425	1
DC3000/delta hrp 24h	1.19469	0.079

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12929	0.183
DC3000 delta B/DC3000 delta AB	1.16684	0.225

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98328	1
Exp 36h	1.50326	1
Exp 60h	1.10742	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98766	1
Var 0h	1.38405	0.936
Var 12h I row2-row1	1.07526	1
Var 12h NI row2-row1	1.13343	1
Var 36h I row2-row1	1.16361	0.489
Var 36h NI row2-row1	0.85587	0.61
Var 60h I row2-row1	0.95476	0.952
Var 60h NI row2-row1	0.69999	0.292
Time course 0hI-0hNI	0.8199	0.051
Time course 12hI-12hNI	1.08834	0.512
Time course 36hI-36hNI	1.3513	0.147
Time course 60hI-60hNI	1.54691	0.025

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)	1.00734	1
transgenic ySAMdc/azygous control (breaker)	1.55511	0.172
transgenic ySAMdc/azygous control (red)	1.24757	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.11299	0.13

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.67878	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03347	1
Manapal/WT (break)	1.08045	0.183
Manapal/WT (red)	1.61327	0.164