Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.16.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80209	0.364
27DAP/17DAP	1.25992	0.804
39DAP/27DAP	0.95911	0.769
41DAP/39DAP	1.05539	0.915
42DAP/41DAP	1.09779	1
43DAP/42DAP	0.95461	0.91
47DAP/43DAP	1.03477	0.966
52DAP/47DAP	1.25356	0.994
57DAP/52DAP	0.86883	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8356	0.068
17DAP/reference	1.04496	0.675
27DAP/reference	0.97322	0.581
39DAP/reference	1.10001	0.27
41DAP/reference	0.90523	0.341
42DAP/reference	0.93851	0.02
43DAP/reference	0.89436	0.163
47DAP/reference	0.93678	0.077
52DAP/reference	0.89478	0.195
57DAP/reference	1.03005	0.829

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.6626	0.081
27DAP/17DAP	1.12081	0.694
39DAP/27DAP	0.68311	0.063
41DAP/39DAP	1.17893	0.79
42DAP/41DAP	0.8382	0.298
43DAP/42DAP	0.90059	0.503
47DAP/43DAP	1.22879	0.713
52DAP/47DAP	1.8772	0.414
57DAP/52DAP	0.79781	0.245
57DAP/7DAP	1.35455	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9099	0.168
17DAP/reference	1.11895	0.199
27DAP/reference	1.16009	0.453
39DAP/reference	1.01379	1
41DAP/reference	0.99628	0.709
42DAP/reference	1.02515	1
43DAP/reference	0.96145	0.459
47DAP/reference	0.87567	0.222
52DAP/reference	0.95528	0.363
57DAP/reference	1.1791	0.023

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97267	0.688
17DAP/reference	0.87276	0.038
27DAP/reference	0.7713	0.053
39DAP/reference	0.72961	0.033
41DAP/reference	0.84484	0.068
42DAP/reference	0.83304	0.169
43DAP/reference	0.84519	0.166
47DAP/reference	0.9069	0.129
52DAP/reference	0.99522	0.619
57DAP/reference	0.94731	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17248	0.366
17DAP/reference	0.9961	0.792
27DAP/reference	1.07154	0.227
39DAP/reference	1.06225	0.711
41DAP/reference	1.00583	1
42DAP/reference	0.93169	0.361
43DAP/reference	1.04015	0.949
47DAP/reference	0.97228	0.478
52DAP/reference	1.14458	0.542
57DAP/reference	0.802	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99634	1
26DAP/20DAP	0.68311	0.512
34DAP/26DAP	0.79273	0.861
51DAP/34DAP	1.77957	0.046
52DAP/51DAP	0.81387	1
53DAP/52DAP	1.20652	0.895
55DAP/53DAP	1.01354	0.876
57DAP/55DAP	0.95537	0.825
62DAP/57DAP	0.91513	0.681
68DAP/62DAP	1.23149	1
68DAP/14DAP	0.87623	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.80731	0.097

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.24378	1
Mature Eggplant/Ripe Tomato	1.83979

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.17766
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.25118
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.48385
9-3-2/M82	N/A	N/A

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	N/A	N/A
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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92143	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.13281	1
DC3000/delta hrp 24h	1.21813	0.37

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	1.08766	1
Exp 36h	0.75051	0.82
Exp 60h	1.01259	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9759	1
Var 0h	0.88891	1
Var 12h I row2-row1	1.08385	0.473
Var 12h NI row2-row1	1.1022	1
Var 36h I row2-row1	0.44687
Var 36h NI row2-row1	0.80335	0.743
Var 60h I row2-row1	0.87128	0.285
Var 60h NI row2-row1	3.1096	0.904
Time course 0hI-0hNI	1.15279	0.799
Time course 12hI-12hNI	1.45428	0.517
Time course 36hI-36hNI	1.35815	0.035
Time course 60hI-60hNI	5.13399	0.069

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)	0.96669	0.789
transgenic ySAMdc/azygous control (breaker)	0.95195	0.49
transgenic ySAMdc/azygous control (red)	1.41367	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96551	0.323

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0484	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04548	1
Manapal/WT (break)	0.95761	1
Manapal/WT (red)	1.05061	1