Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.14.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02198	0.997
27DAP/17DAP	0.76992	0.403
39DAP/27DAP	1.05867	1
41DAP/39DAP	0.92758	0.697
42DAP/41DAP	1.04983	0.994
43DAP/42DAP	0.97094	0.925
47DAP/43DAP	1.36972	0.502
52DAP/47DAP	1.11077	0.884
57DAP/52DAP	0.93278	0.882

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11565	0.567
17DAP/reference	1.15326	0.148
27DAP/reference	1.10585	0.194
39DAP/reference	1.10919	0.434
41DAP/reference	1.22161	0.03
42DAP/reference	0.97529	0.455
43DAP/reference	1.10617	0.175
47DAP/reference	1.29068	0.057
52DAP/reference	1.31219	0.009
57DAP/reference	0.93247	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19636	0.298
27DAP/17DAP	0.89578	0.748
39DAP/27DAP	0.7006	0.066
41DAP/39DAP	0.88498	0.764
42DAP/41DAP	1.21059	0.836
43DAP/42DAP	1.15665	0.513
47DAP/43DAP	0.98227	0.919
52DAP/47DAP	1.016	0.979
57DAP/52DAP	1.06349	0.911
57DAP/7DAP	0.99146

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94344	0.296
17DAP/reference	0.76533	0.024
27DAP/reference	0.68621	0.01
39DAP/reference	0.71655	0.011
41DAP/reference	0.68135	0.013
42DAP/reference	0.69673	0.01
43DAP/reference	0.64342	0.011
47DAP/reference	0.60315	0.03
52DAP/reference	0.64946	0.012
57DAP/reference	0.72502	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98164	0.77
17DAP/reference	1.12855	0.898
27DAP/reference	1.10847	0.595
39DAP/reference	1.1454	0.449
41DAP/reference	1.04025	0.749
42DAP/reference	0.9099	0.355
43DAP/reference	1.14867	0.485
47DAP/reference	1.10745	0.841
52DAP/reference	1.02916	1
57DAP/reference	0.7414	0.156

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80586	0.036
17DAP/reference	1.0836	0.595
27DAP/reference	0.77162	0.025
39DAP/reference	0.73203	0.014
41DAP/reference	0.72448	0.024
42DAP/reference	0.73757	0.071
43DAP/reference	0.89847	0.334
47DAP/reference	1.03667	0.731
52DAP/reference	0.64604	0.105
57DAP/reference	2.28235	0.214

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99401	1
26DAP/20DAP	1.0006	1
34DAP/26DAP	0.80896	0.702
51DAP/34DAP	1.12641	0.925
52DAP/51DAP	1.37055	0.588
53DAP/52DAP	0.98508	0.902
55DAP/53DAP	1.551	0.039
57DAP/55DAP	1.23628	0.87
62DAP/57DAP	0.88152	0.871
68DAP/62DAP	0.99927	0.81
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.27456	0.347

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.86534	0.426
Mature Green Tomato/Ripe Tomato	2.08401	0.053
Immature Eggplant/Mature Eggplant	0.56345	0.068
Ripe Pepper/Ripe Tomato	1.01149
Mature Eggplant/Ripe Tomato	0.66481

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.941
1-1-2/M82	1.0134
12-2/M82	0.97745	0.955
12-4/M82	0.86854	0.282
1-3/M82	1.14096	1
2-1-1/M82	0.97584	1
2-1/M82	0.70506
2-6/M82	1.80017	0.505
3-2/M82	0.90901
4-1-1/M82	1.20674	0.739
4-1/M82	0.82648
4-3-2/M82	1.53109
4-3/M82	1.37953	1
5-3/M82	0.92294	0.49
6-2/M82	1.13301	1
6-3/M82	1.08502	1
7-1/M82	0.89111
7-2/M82	N/A	N/A
9-3-2/M82	1.12803

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.91433	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.63322	0.362
IL12-4/WTpooled	1.07871	0.839
IL1-4/WTpooled	1.09685	1
WT/WTpooled	1.12421	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	1.03738	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89946	0.849
DC3000/delta hrp 6h	0.87862	0.95
DC3000/delta hrp 12h	1.35279	1
DC3000/delta hrp 24h	0.82244	0.155

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00539	1
DC3000 delta B/DC3000 delta AB	0.62067	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94028	1
Exp 36h	0.72309	0.539
Exp 60h	0.73873	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03083	1
Var 0h	1.08883	0.98
Var 12h I row2-row1	0.80324	0.565
Var 12h NI row2-row1	0.85909	0.349
Var 36h I row2-row1	0.83696	1
Var 36h NI row2-row1	1.10831	1
Var 60h I row2-row1	1.50955
Var 60h NI row2-row1	1.11754	0.904
Time course 0hI-0hNI	1.03946	0.852
Time course 12hI-12hNI	0.93159	0.338
Time course 36hI-36hNI	0.81603	0.035
Time course 60hI-60hNI	0.32205	0.006

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)	1.10926	0.325
transgenic ySAMdc/azygous control (breaker)	1.0506	1
transgenic ySAMdc/azygous control (red)	1.25431	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95702	0.057

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.35775	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.94243	0.083
Manapal/WT (break)	1.91832	0.13
Manapal/WT (red)	1.67575	0.134