Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.19.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14293	0.755
27DAP/17DAP	0.92175	0.846
39DAP/27DAP	0.73749	0.392
41DAP/39DAP	0.91918	0.781
42DAP/41DAP	1.09952	0.898
43DAP/42DAP	1.17228	0.703
47DAP/43DAP	0.98955	0.92
52DAP/47DAP	0.88163	0.662
57DAP/52DAP	0.98964	0.976

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14948	0.366
17DAP/reference	1.18903	0.193
27DAP/reference	1.2374	0.065
39DAP/reference	1.2751	0.249
41DAP/reference	1.56723	0.032
42DAP/reference	1.33489	0.001
43DAP/reference	1.10572	0.73
47DAP/reference	1.48746	0.002
52DAP/reference	1.59716	0.01
57DAP/reference	1.27372	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.75921	0.036
27DAP/17DAP	1.05965	0.9
39DAP/27DAP	0.83958	0.426
41DAP/39DAP	1.03443	0.895
42DAP/41DAP	0.96951	0.743
43DAP/42DAP	0.74521	0.06
47DAP/43DAP	0.92987	0.418
52DAP/47DAP	1.15784	0.568
57DAP/52DAP	1.18152	0.376
57DAP/7DAP	0.89907	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88603	0.246
17DAP/reference	0.86492	0.144
27DAP/reference	1.08242	0.664
39DAP/reference	0.85525	0.109
41DAP/reference	0.84507	0.07
42DAP/reference	0.72536	0.038
43DAP/reference	0.81594	0.018
47DAP/reference	1.11595	0.304
52DAP/reference	1.01234	0.74
57DAP/reference	0.89581	0.199

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00582	0.993
17DAP/reference	1.16931	0.484
27DAP/reference	1.22614	0.412
39DAP/reference	1.32019	0.035
41DAP/reference	1.17691	0.162
42DAP/reference	1.28562	0.084
43DAP/reference	1.09915	0.396
47DAP/reference	1.07592	0.527
52DAP/reference	1.17831	0.208
57DAP/reference	1.09808	0.786

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95807	0.362
17DAP/reference	0.93625	0.407
27DAP/reference	0.91881	0.218
39DAP/reference	0.96088	0.464
41DAP/reference	1.07281	0.692
42DAP/reference	1.20248	0.175
43DAP/reference	1.42383	0.011
47DAP/reference	1.30851	0.053
52DAP/reference	1.05497	0.904
57DAP/reference	1.33679	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07697
26DAP/20DAP	1.06694	0.77
34DAP/26DAP	0.96657	0.94
51DAP/34DAP	0.93665	0.649
52DAP/51DAP	1.3822	0.035
53DAP/52DAP	0.7079	0.078
55DAP/53DAP	0.9211	0.35
57DAP/55DAP	1.39548	0.841
62DAP/57DAP	1.02758	0.994
68DAP/62DAP	1.04859	0.939
68DAP/14DAP	0.82129

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78921	0.052

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.87018	0.436
Mature Green Tomato/Ripe Tomato	0.77297	0.2
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.53925	0.224
Mature Eggplant/Ripe Tomato	0.17528	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.27424	0.574
1-1-2/M82	1.05276
12-2/M82	0.89123
12-4/M82	0.82828	0.619
1-3/M82	1.76097
2-1-1/M82	N/A	N/A
2-1/M82	0.76094
2-6/M82	N/A	N/A
3-2/M82	0.66247
4-1-1/M82	1.15841	1
4-1/M82	1.1156
4-3-2/M82	1.03447
4-3/M82	1.35626	1
5-3/M82	0.9554	1
6-2/M82	0.90101	0.497
6-3/M82	1.12444	1
7-1/M82	0.91816	1
7-2/M82	N/A	N/A
9-3-2/M82	0.95007

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.46247
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.0057
IL12-4/WTpooled	1.07065	0.839
IL1-4/WTpooled	1.25425	1
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	1.0312	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02027	1
DC3000/delta hrp 6h	1.49964
DC3000/delta hrp 12h	1.1268	1
DC3000/delta hrp 24h	1.01412	0.966

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.52143	0.024
DC3000 delta B/DC3000 delta AB	0.47961	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13208	1
Exp 36h	N/A	N/A
Exp 60h	1.1697	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99957	1
Var 0h	1.44359	0.936
Var 12h I row2-row1	0.91484	0.514
Var 12h NI row2-row1	0.91093	0.466
Var 36h I row2-row1	0.84359	0.805
Var 36h NI row2-row1	1.32253	1
Var 60h I row2-row1	1.29895	0.562
Var 60h NI row2-row1	1.04386	1
Time course 0hI-0hNI	0.99813	1
Time course 12hI-12hNI	1.03059	0.756
Time course 36hI-36hNI	0.95019	0.312
Time course 60hI-60hNI	0.13456	0.005

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)	1.04096	0.699
transgenic ySAMdc/azygous control (breaker)	1.10034	1
transgenic ySAMdc/azygous control (red)	0.96383	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.89326	0.042

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.63538	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.89406	0.299
Manapal/WT (red)	1.61355	0.142