Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.20.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12631	0.798
27DAP/17DAP	1.28036	1
39DAP/27DAP	1.12072	0.75
41DAP/39DAP	1.34362	0.357
42DAP/41DAP	0.74918	0.774
43DAP/42DAP	1.1089	1
47DAP/43DAP	0.81455	0.439
52DAP/47DAP	1.37988	0.776
57DAP/52DAP	1.30658	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90889	0.145
17DAP/reference	1.01205	0.904
27DAP/reference	0.9489	0.406
39DAP/reference	1.02103	0.786
41DAP/reference	0.90599	0.267
42DAP/reference	0.92022	0.045
43DAP/reference	1.11247	0.102
47DAP/reference	0.98422	0.503
52DAP/reference	0.97365	0.475
57DAP/reference	0.97154	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.82787	0.372
27DAP/17DAP	1.1768	0.447
39DAP/27DAP	0.95942	0.721
41DAP/39DAP	1.38693	0.735
42DAP/41DAP	0.94342	0.644
43DAP/42DAP	0.86339	0.522
47DAP/43DAP	1.184	0.383
52DAP/47DAP	0.91183	0.778
57DAP/52DAP	1.04096	1
57DAP/7DAP	1.4387	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93004	0.183
17DAP/reference	1.06319	0.525
27DAP/reference	1.14732	0.246
39DAP/reference	1.16848	0.032
41DAP/reference	1.08207	0.303
42DAP/reference	1.20955	0.046
43DAP/reference	1.16373	0.083
47DAP/reference	0.99497	1
52DAP/reference	0.96973	0.523
57DAP/reference	0.98858	0.569

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91185	0.329
17DAP/reference	0.8828	0.159
27DAP/reference	0.77645	0.037
39DAP/reference	0.80783	0.015
41DAP/reference	0.91553	0.08
42DAP/reference	0.95222	0.433
43DAP/reference	1.02142	1
47DAP/reference	1.13328	0.441
52DAP/reference	0.88563	0.072
57DAP/reference	0.9191	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84321	0.029
17DAP/reference	1.00779	0.9
27DAP/reference	1.2079	0.027
39DAP/reference	1.10296	0.13
41DAP/reference	1.15838	0.096
42DAP/reference	1.16005	0.068
43DAP/reference	1.04263	0.734
47DAP/reference	1.05176	0.443
52DAP/reference	0.97175	0.675
57DAP/reference	0.96219	0.321

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98874	1
26DAP/20DAP	0.90185	1
34DAP/26DAP	0.81492	0.777
51DAP/34DAP	0.78356	0.508
52DAP/51DAP	1.7476	0.193
53DAP/52DAP	1.31371	0.83
55DAP/53DAP	0.91297	0.709
57DAP/55DAP	0.98654	0.875
62DAP/57DAP	1.3466	0.445
68DAP/62DAP	1.33986	0.162
68DAP/14DAP	1.37934	0.2

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.81494	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.93411
Mature Green Tomato/Ripe Tomato	0.33477	0.226
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.23101	1
Mature Eggplant/Ripe Tomato	0.60028

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.58077
1-1-2/M82	1.03733	0.977
12-2/M82	1.68448
12-4/M82	1.49486
1-3/M82	0.68495	0.441
2-1-1/M82	0.82662
2-1/M82	N/A	N/A
2-6/M82	0.98628	1
3-2/M82	N/A	N/A
4-1-1/M82	0.57799
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.59933
5-3/M82	1.07972	0.496
6-2/M82	1.03572	1
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.73136	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90627	0.247
IL2-6/WTpooled	0.93654	1
IL7-5/WTpooled	1.35144	0.75
IL7-3/WTpooled	1.02631	1
IL12-4/WTpooled	0.93314	1
IL1-4/WTpooled	0.95881	1
WT/WTpooled	0.98993	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	1.64996	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.1717	0.894
DC3000/delta hrp 6h	0.57001	0.757
DC3000/delta hrp 12h	0.94677	1
DC3000/delta hrp 24h	1.03176	0.516

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	1.05446	1
Exp 36h	N/A	N/A
Exp 60h	1.38526	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.84598	1
Var 0h	N/A	N/A
Var 12h I row2-row1	3.15416	0.406
Var 12h NI row2-row1	0.92156	0.713
Var 36h I row2-row1	1.48905	0.908
Var 36h NI row2-row1	1.51162	1
Var 60h I row2-row1	1.34095	1
Var 60h NI row2-row1	1.30744	0.904
Time course 0hI-0hNI	0.86707	0.359
Time course 12hI-12hNI	1.59378	0.168
Time course 36hI-36hNI	1.264	0.039
Time course 60hI-60hNI	2.91289	0.06

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)	0.91696	0.246
transgenic ySAMdc/azygous control (breaker)	0.89948	0.131
transgenic ySAMdc/azygous control (red)	0.97169	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98852	0.534

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.18706	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05158	1
Manapal/WT (break)	0.88003	1
Manapal/WT (red)	0.73662	0.424