Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.11.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99419	0.801
27DAP/17DAP	1.32267	0.653
39DAP/27DAP	0.96201	0.733
41DAP/39DAP	1.05126	0.909
42DAP/41DAP	1.00894	1
43DAP/42DAP	1.1016	1
47DAP/43DAP	1.09971	0.715
52DAP/47DAP	1.28258	0.541
57DAP/52DAP	0.76968	0.7

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92355	0.284
17DAP/reference	1.04211	0.843
27DAP/reference	1.04447	0.648
39DAP/reference	0.98128	0.72
41DAP/reference	1.15578	0.158
42DAP/reference	0.8243	0.04
43DAP/reference	1.01105	1
47DAP/reference	0.79038	0.106
52DAP/reference	0.79962	0.093
57DAP/reference	0.75621	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75167	0.087
27DAP/17DAP	1.00509	1
39DAP/27DAP	1.18855	0.441
41DAP/39DAP	0.99408	1
42DAP/41DAP	1.32413	0.904
43DAP/42DAP	1.02148	1
47DAP/43DAP	1.28003	0.765
52DAP/47DAP	0.81519	0.098
57DAP/52DAP	1.10504	0.911
57DAP/7DAP	0.92261	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.53847	0.047
17DAP/reference	1.73639	0.059
27DAP/reference	1.44143	0.035
39DAP/reference	1.83626	0.017
41DAP/reference	1.45217	0.02
42DAP/reference	1.78417	0.059
43DAP/reference	1.83387	0.007
47DAP/reference	1.12495	0.868
52DAP/reference	1.461	0.036
57DAP/reference	1.51357	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05289	0.507
17DAP/reference	0.88435	0.357
27DAP/reference	1.02841	0.988
39DAP/reference	0.92699	0.322
41DAP/reference	0.83455	0.112
42DAP/reference	0.95984	0.433
43DAP/reference	1.07734	0.919
47DAP/reference	0.97591	0.41
52DAP/reference	1.14366	0.702
57DAP/reference	1.32697	0.398

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21273	0.481
17DAP/reference	1.08703	0.966
27DAP/reference	1.45332	0.056
39DAP/reference	1.44915	0.008
41DAP/reference	1.37349	0.047
42DAP/reference	1.19819	0.459
43DAP/reference	1.02114	0.827
47DAP/reference	1.08156	0.63
52DAP/reference	1.13756	0.614
57DAP/reference	0.8869	0.116

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.8718	0.915
26DAP/20DAP	0.94109
34DAP/26DAP	1.37505	0.542
51DAP/34DAP	0.84224
52DAP/51DAP	0.65564	1
53DAP/52DAP	1.30848	0.712
55DAP/53DAP	1.19386	0.806
57DAP/55DAP	0.85996	0.516
62DAP/57DAP	0.97944	0.994
68DAP/62DAP	2.05539
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1434	0.737

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98852
1-1-2/M82	0.86989	1
12-2/M82	0.21325
12-4/M82	1.10231	1
1-3/M82	0.80929
2-1-1/M82	0.73231
2-1/M82	N/A	N/A
2-6/M82	1.05666
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.19862
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.96756
6-2/M82	0.47331
6-3/M82	1.24838	1
7-1/M82	N/A	N/A
7-2/M82	0.87758
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	0.88812
IL1-4/WTpooled	0.77467
WT/WTpooled	0.9006	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15729	0.846
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.07849	1
DC3000/delta hrp 24h	0.99898	1

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	N/A	N/A
Exp 36h	N/A	N/A
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	0.97056	1
Var 0h	0.67283	0.232
Var 12h I row2-row1	0.91021	0.39
Var 12h NI row2-row1	0.99089	1
Var 36h I row2-row1	1.15926	0.283
Var 36h NI row2-row1	1.06442	1
Var 60h I row2-row1	0.94129	0.952
Var 60h NI row2-row1	1.10012	1
Time course 0hI-0hNI	1.04583	0.852
Time course 12hI-12hNI	1.03926	0.861
Time course 36hI-36hNI	1.03898	0.881
Time course 60hI-60hNI	1.0907	0.495

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)	1.05033	0.921
transgenic ySAMdc/azygous control (breaker)	1.01249	1
transgenic ySAMdc/azygous control (red)	1.12625	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97092	0.295

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91427	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06606	0.14
Manapal/WT (break)	0.84921	1
Manapal/WT (red)	0.81003	0.424