Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.19.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20201	0.63
27DAP/17DAP	0.99298	1
39DAP/27DAP	0.9658	0.798
41DAP/39DAP	0.88404	0.694
42DAP/41DAP	0.87528	1
43DAP/42DAP	0.97273	0.918
47DAP/43DAP	0.85827	0.54
52DAP/47DAP	1.2973	0.702
57DAP/52DAP	1.4175	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02528	0.788
17DAP/reference	1.05233	0.369
27DAP/reference	1.01818	0.648
39DAP/reference	1.00886	0.8
41DAP/reference	0.98092	0.667
42DAP/reference	1.01388	1
43DAP/reference	0.93189	0.2
47DAP/reference	0.93487	0.09
52DAP/reference	0.95732	0.427
57DAP/reference	0.95534	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97272	0.629
27DAP/17DAP	1.03431	0.893
39DAP/27DAP	0.99435	1
41DAP/39DAP	1.1277	0.799
42DAP/41DAP	1.04248	0.893
43DAP/42DAP	1.01517	0.83
47DAP/43DAP	1.02715	0.889
52DAP/47DAP	0.98671	0.925
57DAP/52DAP	0.9942	0.857
57DAP/7DAP	1.11136	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.069	0.435
17DAP/reference	0.88013	0.014
27DAP/reference	0.91173	0.117
39DAP/reference	1.06297	0.314
41DAP/reference	1.10753	0.251
42DAP/reference	1.15778	0.037
43DAP/reference	1.36251	0.027
47DAP/reference	1.13571	0.395
52DAP/reference	1.40389	0.055
57DAP/reference	1.16316	0.043

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93194	0.231
17DAP/reference	0.9442	0.109
27DAP/reference	0.90293	0.22
39DAP/reference	0.87524	0.097
41DAP/reference	0.80277	0.017
42DAP/reference	0.90685	0.212
43DAP/reference	0.86207	0.033
47DAP/reference	0.95006	0.178
52DAP/reference	0.91391	0.04
57DAP/reference	0.95995	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98542	0.197
17DAP/reference	0.90608	0.182
27DAP/reference	0.96615	0.337
39DAP/reference	1.01236	0.912
41DAP/reference	0.98354	0.512
42DAP/reference	0.92072	0.287
43DAP/reference	1.00426	1
47DAP/reference	0.95276	0.278
52DAP/reference	0.84971	0.193
57DAP/reference	0.80751	0.068

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.019	0.966
26DAP/20DAP	0.8191	0.512
34DAP/26DAP	1.01052	1
51DAP/34DAP	0.90133	0.513
52DAP/51DAP	1.09193	0.638
53DAP/52DAP	1.04752	0.594
55DAP/53DAP	1.07606	0.218
57DAP/55DAP	1.1152	0.793
62DAP/57DAP	1.12439	0.445
68DAP/62DAP	1.04298	0.971
68DAP/14DAP	0.97442	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96126	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.50143	0.089
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.75442	0.085
Ripe Pepper/Ripe Tomato	1.60691
Mature Eggplant/Ripe Tomato	0.80925	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96867	0.961
1-1-2/M82	0.98253	1
12-2/M82	0.9784	1
12-4/M82	0.99378	1
1-3/M82	0.92678	1
2-1-1/M82	1.11544	0.764
2-1/M82	N/A	N/A
2-6/M82	1.14249	0.594
3-2/M82	0.85857
4-1-1/M82	1.10671	0.968
4-1/M82	1.01588
4-3-2/M82	0.8501
4-3/M82	0.91112	1
5-3/M82	0.93121	0.642
6-2/M82	0.99893	1
6-3/M82	0.93571	1
7-1/M82	0.87518
7-2/M82	0.94016	0.796
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	1.41571	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01976	0.921
DC3000/delta hrp 6h	2.42073	1
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.09769	0.467

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06549	0.476
DC3000 delta B/DC3000 delta AB	1.02073	0.677

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.24454	1
Exp 36h	1.05233	0.693
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.80968	0.457
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.64917
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	0.86234
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	0.83746

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)	1.51123	0.232
transgenic ySAMdc/azygous control (breaker)	0.92442	0.49
transgenic ySAMdc/azygous control (red)	1.34264	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0115	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00058	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79629	1
Manapal/WT (break)	0.64271	0.333
Manapal/WT (red)	0.47547	0.181