Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.14.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.62504	0.123
27DAP/17DAP	1.20331	0.868
39DAP/27DAP	0.86624	0.573
41DAP/39DAP	0.83165	0.416
42DAP/41DAP	1.01975	1
43DAP/42DAP	0.92556	0.864
47DAP/43DAP	0.7973	0.395
52DAP/47DAP	1.19286	0.763
57DAP/52DAP	1.23962	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39008	0.033
17DAP/reference	1.06122	0.185
27DAP/reference	0.87122	0.031
39DAP/reference	0.99316	0.885
41DAP/reference	1.11487	0.085
42DAP/reference	0.80911	0.001
43DAP/reference	0.90603	0.036
47DAP/reference	0.83566	0.007
52DAP/reference	0.83511	0.036
57DAP/reference	0.98112	0.526

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.54578	0.044
27DAP/17DAP	1.01785	0.98
39DAP/27DAP	1.03326	1
41DAP/39DAP	1.95008	0.016
42DAP/41DAP	0.7828	0.036
43DAP/42DAP	0.51607	0.022
47DAP/43DAP	0.86404	0.297
52DAP/47DAP	0.95552	0.848
57DAP/52DAP	0.96959	0.7
57DAP/7DAP	0.98744	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.5474	0.034
17DAP/reference	1.36366	0.016
27DAP/reference	1.17366	1
39DAP/reference	1.01584	1
41DAP/reference	1.33774	0.066
42DAP/reference	1.37243	0.016
43DAP/reference	1.07972	0.273
47DAP/reference	0.96399	0.504
52DAP/reference	1.11324	0.526
57DAP/reference	1.02615	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.6336	0.029
17DAP/reference	0.90206	0.201
27DAP/reference	1.25867	0.639
39DAP/reference	0.8783	0.173
41DAP/reference	1.00442	0.735
42DAP/reference	0.89029	0.135
43DAP/reference	1.07942	0.386
47DAP/reference	0.97376	0.473
52DAP/reference	0.83057	0.004
57DAP/reference	0.84673	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.74657	0.016
17DAP/reference	1.54545	0.092
27DAP/reference	1.4754	0.014
39DAP/reference	1.42093	0.007
41DAP/reference	1.11629	0.065
42DAP/reference	0.81677	0.049
43DAP/reference	0.77962	0.033
47DAP/reference	0.77119	0.008
52DAP/reference	1.01268	0.888
57DAP/reference	0.77014	0.047

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09796	0.966
26DAP/20DAP	0.88582	1
34DAP/26DAP	1.23867	1
51DAP/34DAP	1.31806	0.445
52DAP/51DAP	1.16716	0.792
53DAP/52DAP	1.19631	0.47
55DAP/53DAP	1.0075	0.908
57DAP/55DAP	1.32423	0.779
62DAP/57DAP	1.57931	0.622
68DAP/62DAP	1.27778	0.5
68DAP/14DAP	1.49184	0.153

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.33959	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.78125	0.019
Immature Eggplant/Mature Eggplant	0.22093	0.062
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	12.8215	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03336
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.27831	0.694
1-3/M82	0.51514
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.10126	0.695
3-2/M82	0.77371
4-1-1/M82	N/A	N/A
4-1/M82	1.65041
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.88543	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.95353
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	1.09175	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.01318	1
IL12-4/WTpooled	1.11134	0.532
IL1-4/WTpooled	0.98686
WT/WTpooled	1.03966	0.805

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	0.83092

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14748	0.921
DC3000/delta hrp 6h	2.20215	1
DC3000/delta hrp 12h	1.02129	1
DC3000/delta hrp 24h	0.94541	0.598

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	5.79659

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	2.02701	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00042	1
Var 0h	0.57842	0.933
Var 12h I row2-row1	1.09222	0.348
Var 12h NI row2-row1	1.22687	0.649
Var 36h I row2-row1	1.22635	1
Var 36h NI row2-row1	0.74168	0.645
Var 60h I row2-row1	1.55946	0.543
Var 60h NI row2-row1	0.57065	0.866
Time course 0hI-0hNI	0.85556	0.23
Time course 12hI-12hNI	1.05021	0.836
Time course 36hI-36hNI	1.43616	0.006
Time course 60hI-60hNI	0.99918	0.646

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)	1.44594	0.23
transgenic ySAMdc/azygous control (breaker)	1.08165	1
transgenic ySAMdc/azygous control (red)	1.35753	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9303	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.23656	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.59503	0.105
Manapal/WT (break)	0.99517	1
Manapal/WT (red)	N/A	N/A