Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.11.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98916	0.728
27DAP/17DAP	1.23876	0.798
39DAP/27DAP	1.27178	0.524
41DAP/39DAP	0.84868	0.422
42DAP/41DAP	1.00821	1
43DAP/42DAP	0.93459	0.815
47DAP/43DAP	1.08765	0.943
52DAP/47DAP	1.27952	0.876
57DAP/52DAP	0.96601	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.37605
17DAP/reference	0.71962
27DAP/reference	3.57694	0.291
39DAP/reference	1.43493	0.534
41DAP/reference	0.68676	0.114
42DAP/reference	1.45777	0.068
43DAP/reference	0.70813
47DAP/reference	0.70335	0.005
52DAP/reference	1.20163	1
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90565	0.442
27DAP/17DAP	1.07091	0.957
39DAP/27DAP	1.17283	0.388
41DAP/39DAP	0.99614	0.997
42DAP/41DAP	1.05701	0.935
43DAP/42DAP	1.01588	0.83
47DAP/43DAP	1.0178	0.99
52DAP/47DAP	0.84473	0.512
57DAP/52DAP	0.96825	0.665
57DAP/7DAP	0.73037	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82254	0.138
17DAP/reference	1.17088	0.134
27DAP/reference	0.9788	0.494
39DAP/reference	1.09879	0.511
41DAP/reference	1.41387	0.018
42DAP/reference	1.61924	0.037
43DAP/reference	2.45634	0.006
47DAP/reference	0.76146	0.036
52DAP/reference	0.95334	0.332
57DAP/reference	3.38155	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.60463	0.023
17DAP/reference	0.89834	0.253
27DAP/reference	0.4832	0.012
39DAP/reference	0.59221	0.036
41DAP/reference	1.41035	0.102
42DAP/reference	1.17883	0.594
43DAP/reference	1.38812	0.146
47DAP/reference	0.89193
52DAP/reference	0.34764	0.005
57DAP/reference	0.71094	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.65925	0.032
17DAP/reference	0.84636	0.221
27DAP/reference	1.245	0.036
39DAP/reference	1.1973	0.094
41DAP/reference	0.88474	0.07
42DAP/reference	0.95662	0.552
43DAP/reference	1.30901	0.053
47DAP/reference	1.20138	0.127
52DAP/reference	1.13934	0.542
57DAP/reference	1.37467	0.092

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01695	1
26DAP/20DAP	1.21378	0.273
34DAP/26DAP	0.8064	0.584
51DAP/34DAP	0.86721	0.323
52DAP/51DAP	1.05543	0.915
53DAP/52DAP	0.59757	0.071
55DAP/53DAP	0.80888	0.225
57DAP/55DAP	1.22527	0.61
62DAP/57DAP	1.06254	1
68DAP/62DAP	0.89571	0.81
68DAP/14DAP	0.81767	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.27634	0.212

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.30987
Immature Eggplant/Mature Eggplant	1.53391
Ripe Pepper/Ripe Tomato	0.69168	1
Mature Eggplant/Ripe Tomato	0.70279	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.53622	0.551
1-1-2/M82	1.13384	1
12-2/M82	0.92794
12-4/M82	0.95835
1-3/M82	1.19341
2-1-1/M82	0.6881
2-1/M82	0.8609
2-6/M82	0.90411
3-2/M82	1.17122	0.84
4-1-1/M82	1.17767
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.16807	1
5-3/M82	0.99914	1
6-2/M82	1.75758
6-3/M82	0.89649	1
7-1/M82	0.85421	1
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.77435	0.365
IL2-6/WTpooled	0.54515	0.473
IL7-5/WTpooled	0.98568	1
IL7-3/WTpooled	1.63009	0.362
IL12-4/WTpooled	1.37431	0.516
IL1-4/WTpooled	0.93953	0.444
WT/WTpooled	0.9519	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	1.32583	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94408	1
DC3000/delta hrp 6h	0.89187	0.95
DC3000/delta hrp 12h	0.97699	1
DC3000/delta hrp 24h	1.7174	0.038

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.22269	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01177	1
Var 0h	0.94701	1
Var 12h I row2-row1	0.94498	0.77
Var 12h NI row2-row1	1.19214	0.235
Var 36h I row2-row1	0.99293	1
Var 36h NI row2-row1	1.19965	1
Var 60h I row2-row1	1.00428	1
Var 60h NI row2-row1	0.84699	0.318
Time course 0hI-0hNI	0.90222	0.155
Time course 12hI-12hNI	1.02631	0.754
Time course 36hI-36hNI	1.15894	0.114
Time course 60hI-60hNI	1.07841	0.302

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)	1.53033	0.511
transgenic ySAMdc/azygous control (breaker)	0.65329	0.173
transgenic ySAMdc/azygous control (red)	1.38931	0.92

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	0.4236	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.70651	0.172
Manapal/WT (break)	0.75137	1
Manapal/WT (red)	0.86957	0.274