Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.17.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27575	0.498
27DAP/17DAP	1.13068	0.847
39DAP/27DAP	1.65182	0.12
41DAP/39DAP	1.07972	0.929
42DAP/41DAP	0.79066	0.774
43DAP/42DAP	0.94593	0.877
47DAP/43DAP	1.26174	0.889
52DAP/47DAP	1.43437	0.341
57DAP/52DAP	1.16498	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05729	0.846
17DAP/reference	0.89197	0.031
27DAP/reference	0.85321	0.026
39DAP/reference	0.89023	0.221
41DAP/reference	0.73031	0.009
42DAP/reference	1.05081	0.565
43DAP/reference	0.92295	0.2
47DAP/reference	0.92914	0.116
52DAP/reference	0.83482	0.029
57DAP/reference	0.88658	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02169	0.801
27DAP/17DAP	1.21786	0.253
39DAP/27DAP	1.05078	0.654
41DAP/39DAP	1.4529	0.014
42DAP/41DAP	0.7407	0.01
43DAP/42DAP	1.09976	0.273
47DAP/43DAP	1.03574	0.848
52DAP/47DAP	0.95137	0.778
57DAP/52DAP	1.15453	0.504
57DAP/7DAP	1.14297	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20044	0.435
17DAP/reference	1.05978	1
27DAP/reference	0.90045	0.215
39DAP/reference	1.19251	0.267
41DAP/reference	1.18364	0.303
42DAP/reference	1.1728	0.132
43DAP/reference	1.0038	0.764
47DAP/reference	1.2174	0.514
52DAP/reference	1.09041	0.13
57DAP/reference	1.05499	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9049	0.096
17DAP/reference	0.84794	0.066
27DAP/reference	1.1096	0.265
39DAP/reference	1.15285	0.085
41DAP/reference	1.35471	0.006
42DAP/reference	1.27044	0.009
43DAP/reference	0.94909	0.45
47DAP/reference	1.09203	0.225
52DAP/reference	1.05428	0.259
57DAP/reference	0.89865	0.169

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9742	0.566
17DAP/reference	0.93441	0.335
27DAP/reference	1.02828	1
39DAP/reference	1.10251	0.377
41DAP/reference	0.94843	0.459
42DAP/reference	0.86763	0.22
43DAP/reference	1.07646	1
47DAP/reference	0.88957	0.174
52DAP/reference	0.89949	0.36
57DAP/reference	0.96642	0.438

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99507	1
26DAP/20DAP	1.06402	0.826
34DAP/26DAP	1.0329	1
51DAP/34DAP	1.11795	0.581
52DAP/51DAP	0.99564	1
53DAP/52DAP	1.09144	0.935
55DAP/53DAP	1.19828	0.608
57DAP/55DAP	0.99763	0.911
62DAP/57DAP	0.93709	0.871
68DAP/62DAP	1.66893	0.316
68DAP/14DAP	1.56285	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.78649	0.105

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.27329
Mature Green Tomato/Ripe Tomato	0.53392	0.026
Immature Eggplant/Mature Eggplant	0.71246	0.059
Ripe Pepper/Ripe Tomato	0.11953	0.224
Mature Eggplant/Ripe Tomato	0.38295	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.87058	0.934
1-1-2/M82	1.14044	1
12-2/M82	1.35959
12-4/M82	1.02905	1
1-3/M82	0.72084	0.501
2-1-1/M82	0.9877
2-1/M82	N/A	N/A
2-6/M82	0.96988	1
3-2/M82	N/A	N/A
4-1-1/M82	0.99596	1
4-1/M82	1.46798
4-3-2/M82	0.99306	1
4-3/M82	1.1639	1
5-3/M82	0.95882	1
6-2/M82	1.5004	1
6-3/M82	1.02569	1
7-1/M82	1.25842
7-2/M82	0.87353	0.796
9-3-2/M82	1.04222	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.1287	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.97126	1
IL12-4/WTpooled	0.86365	0.71
IL1-4/WTpooled	0.82752
WT/WTpooled	0.97771	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	1.32347	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01363	1
DC3000/delta hrp 6h	1.53215	1
DC3000/delta hrp 12h	1.36208	1
DC3000/delta hrp 24h	1.13776	0.174

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.53453	0.042
DC3000 delta B/DC3000 delta AB	1.35403	0.142

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98465	1
Exp 36h	1.61576	0.489
Exp 60h	1.78103	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95712	1
Var 0h	0.97424	1
Var 12h I row2-row1	1.1951	0.19
Var 12h NI row2-row1	1.18747	0.281
Var 36h I row2-row1	1.12899	1
Var 36h NI row2-row1	0.98512	0.852
Var 60h I row2-row1	0.79874	0.374
Var 60h NI row2-row1	0.80669	0.313
Time course 0hI-0hNI	1.12364	0.413
Time course 12hI-12hNI	2.11799	0.004
Time course 36hI-36hNI	3.46806	0.004
Time course 60hI-60hNI	4.87239	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)	1.23355	0.347
transgenic ySAMdc/azygous control (breaker)	0.56725	0.134
transgenic ySAMdc/azygous control (red)	0.94435	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.43116	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85127	1
Manapal/WT (break)	0.74405	1
Manapal/WT (red)	N/A	N/A