Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.15.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03342	1
27DAP/17DAP	1.29788	0.688
39DAP/27DAP	0.87965	0.537
41DAP/39DAP	1.0446	0.941
42DAP/41DAP	1.08572	0.894
43DAP/42DAP	1.09508	0.94
47DAP/43DAP	1.31714	0.394
52DAP/47DAP	0.83433	0.562
57DAP/52DAP	1.10555	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99897	0.806
17DAP/reference	1.05998	0.178
27DAP/reference	1.03783	0.548
39DAP/reference	1.05206	0.077
41DAP/reference	1.1325	0.018
42DAP/reference	1.04895	0.113
43DAP/reference	1.01036	0.866
47DAP/reference	1.07239	0.065
52DAP/reference	0.96732	0.33
57DAP/reference	1.01644	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96175	0.47
27DAP/17DAP	1.04316	0.842
39DAP/27DAP	0.96895	0.682
41DAP/39DAP	1.01152	0.914
42DAP/41DAP	0.994	0.884
43DAP/42DAP	1.00096	1
47DAP/43DAP	1.0102	0.93
52DAP/47DAP	1.01063	0.965
57DAP/52DAP	0.95965	0.546
57DAP/7DAP	0.98298	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03605	0.927
17DAP/reference	1.16334	0.297
27DAP/reference	1.1029	0.197
39DAP/reference	1.22844	0.018
41DAP/reference	1.12709	0.28
42DAP/reference	1.11925	0.534
43DAP/reference	1.21719	0.132
47DAP/reference	1.01406	1
52DAP/reference	1.19913	0.197
57DAP/reference	1.14943	0.147

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99464	0.884
17DAP/reference	1.01332	0.839
27DAP/reference	0.97196	0.519
39DAP/reference	0.9907	0.586
41DAP/reference	0.97965	0.459
42DAP/reference	0.95188	0.289
43DAP/reference	0.87429	0.039
47DAP/reference	1.0418	0.467
52DAP/reference	0.99268	0.537
57DAP/reference	1.08312	0.177

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07914	0.644
17DAP/reference	1.04997	0.712
27DAP/reference	1.34496	0.022
39DAP/reference	1.26447	0.01
41DAP/reference	1.19638	0.15
42DAP/reference	0.99953	1
43DAP/reference	1.11654	0.465
47DAP/reference	1.02933	0.585
52DAP/reference	2.35378	0.126
57DAP/reference	0.87967	0.174

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03574	0.966
26DAP/20DAP	1.00391	1
34DAP/26DAP	1.00487	1
51DAP/34DAP	0.98537	0.863
52DAP/51DAP	0.96495	1
53DAP/52DAP	1.04708	0.806
55DAP/53DAP	1.02619	1
57DAP/55DAP	0.99746	0.855
62DAP/57DAP	0.84446	0.28
68DAP/62DAP	0.86618	0.668
68DAP/14DAP	1.0476	0.785

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90073	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.2623	0.058
Mature Green Tomato/Ripe Tomato	1.0339	0.752
Immature Eggplant/Mature Eggplant	0.92781	0.493
Ripe Pepper/Ripe Tomato	0.72604
Mature Eggplant/Ripe Tomato	1.04948	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.85574	0.883
1-1-2/M82	0.9227	0.804
12-2/M82	1.18189
12-4/M82	1.09417	1
1-3/M82	0.72264	0.378
2-1-1/M82	1.17314	1
2-1/M82	N/A	N/A
2-6/M82	1.06362	0.594
3-2/M82	0.80068	1
4-1-1/M82	1.0671	1
4-1/M82	0.98005	1
4-3-2/M82	0.83351	0.698
4-3/M82	0.88744	1
5-3/M82	0.94797	0.642
6-2/M82	0.9953	1
6-3/M82	0.88952	1
7-1/M82	0.90675
7-2/M82	1.03475	1
9-3-2/M82	0.68715	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.03653	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.10923	1
IL12-4/WTpooled	1.20269	0.532
IL1-4/WTpooled	1.12691	1
WT/WTpooled	1.09338	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	1.15562	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96341	1
DC3000/delta hrp 6h	1.15581	1
DC3000/delta hrp 12h	1.00537	1
DC3000/delta hrp 24h	1.0261	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07936	0.134
DC3000 delta B/DC3000 delta AB	1.10685	0.318

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92826	0.213
Exp 36h	1.16364	1
Exp 60h	1.0826	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98955	1
Var 0h	0.79436	0.98
Var 12h I row2-row1	1.72815	0.379
Var 12h NI row2-row1	0.91804	0.488
Var 36h I row2-row1	0.81231	1
Var 36h NI row2-row1	1.21173	1
Var 60h I row2-row1	1.33427	0.562
Var 60h NI row2-row1	1.12531	1
Time course 0hI-0hNI	1.00258	1
Time course 12hI-12hNI	1.01601	0.867
Time course 36hI-36hNI	0.98964	0.621
Time course 60hI-60hNI	1.02852	1

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)	0.97202	0.614
transgenic ySAMdc/azygous control (breaker)	1.57126	0.248
transgenic ySAMdc/azygous control (red)	1.22791	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95073	0.112

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78478	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84804	1
Manapal/WT (break)	0.97082	1
Manapal/WT (red)	1.03336	1