Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.6.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13228	0.656
27DAP/17DAP	0.85544	0.635
39DAP/27DAP	1.09742	0.798
41DAP/39DAP	0.93272	0.711
42DAP/41DAP	1.09151	0.937
43DAP/42DAP	0.96076	0.874
47DAP/43DAP	1.24748	0.469
52DAP/47DAP	1.16582	0.729
57DAP/52DAP	1.17717	0.645

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10144	0.587
17DAP/reference	0.89348	0.129
27DAP/reference	1.06408	0.548
39DAP/reference	0.95971	0.554
41DAP/reference	1.01095	1
42DAP/reference	1.1263	0.431
43DAP/reference	0.93285	0.222
47DAP/reference	1.18825	0.148
52DAP/reference	1.38667	0.013
57DAP/reference	1.01715	0.927

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27382	0.728
27DAP/17DAP	1.00449	1
39DAP/27DAP	1.15239	0.496
41DAP/39DAP	1.07288	0.887
42DAP/41DAP	1.06446	0.893
43DAP/42DAP	0.8704	0.052
47DAP/43DAP	0.96942	0.861
52DAP/47DAP	0.9872	0.93
57DAP/52DAP	0.98431	0.804
57DAP/7DAP	1.04392	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02375	1
17DAP/reference	1.14916	0.199
27DAP/reference	1.0917	0.301
39DAP/reference	1.08613	0.252
41DAP/reference	1.07486	0.577
42DAP/reference	1.06828	1
43DAP/reference	1.02989	0.923
47DAP/reference	0.96103	0.222
52DAP/reference	1.00176	1
57DAP/reference	0.98267	0.513

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86093	0.182
17DAP/reference	0.88461	0.109
27DAP/reference	1.25171	0.156
39DAP/reference	1.29459	0.17
41DAP/reference	1.40026	0.034
42DAP/reference	1.08207	0.398
43DAP/reference	0.95676	0.486
47DAP/reference	0.81967	0.062
52DAP/reference	1.08061	0.322
57DAP/reference	0.77654	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01164	1
17DAP/reference	1.00331	0.855
27DAP/reference	1.11277	0.149
39DAP/reference	1.04495	0.451
41DAP/reference	1.15048	0.052
42DAP/reference	1.265	0.043
43DAP/reference	1.3147	0.121
47DAP/reference	1.13915	0.127
52DAP/reference	1.04252	0.89
57DAP/reference	1.57705	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.39183	0.966
26DAP/20DAP	0.87344	0.512
34DAP/26DAP	1.06814	1
51DAP/34DAP	0.82553	0.376
52DAP/51DAP	0.87146	1
53DAP/52DAP	1.41339	0.162
55DAP/53DAP	0.90616	0.648
57DAP/55DAP	2.81636	0.854
62DAP/57DAP	1.35298	0.767
68DAP/62DAP	1.94027	0.178
68DAP/14DAP	1.21578	0.403

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.27177	0.099

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.95646	0.611
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.46138	0.293
Mature Eggplant/Ripe Tomato	0.2607	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1118	0.574
1-1-2/M82	1.02491
12-2/M82	N/A	N/A
12-4/M82	0.67959
1-3/M82	0.96755
2-1-1/M82	0.85043
2-1/M82	N/A	N/A
2-6/M82	0.9046	1
3-2/M82	0.67491
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	0.90125	1
5-3/M82	1.06543	1
6-2/M82	0.83327
6-3/M82	0.97982	1
7-1/M82	1.00761	1
7-2/M82	N/A	N/A
9-3-2/M82	1.12563

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.30703	0.46
IL7-5/WTpooled	1.0186
IL7-3/WTpooled	0.89091	1
IL12-4/WTpooled	1.33811	0.546
IL1-4/WTpooled	1.0836	1
WT/WTpooled	1.00666	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	1.00218	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11027	0.894
DC3000/delta hrp 6h	0.5535
DC3000/delta hrp 12h	0.94109	1
DC3000/delta hrp 24h	0.89881	0.464

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.65409	0.088
DC3000 delta B/DC3000 delta AB	0.54408	0.021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10838	1
Exp 36h	1.01787	0.943
Exp 60h	0.9607	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05981	1
Var 0h	0.97342	1
Var 12h I row2-row1	0.92655	0.627
Var 12h NI row2-row1	1.02744	1
Var 36h I row2-row1	1.1191	1
Var 36h NI row2-row1	1.00737	1
Var 60h I row2-row1	1.01898	1
Var 60h NI row2-row1	0.94671	1
Time course 0hI-0hNI	1.04338	0.662
Time course 12hI-12hNI	1.01559	0.836
Time course 36hI-36hNI	1.20743	0.063
Time course 60hI-60hNI	0.64357	0.006

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)	0.87321	0.315
transgenic ySAMdc/azygous control (breaker)	0.81511	0.173
transgenic ySAMdc/azygous control (red)	1.07051	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96651	0.16

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06177	1
Manapal/WT (break)	0.91611	1
Manapal/WT (red)	1.43817	0.164