Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.6.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04573	0.912
27DAP/17DAP	1.04032	0.889
39DAP/27DAP	0.96333	0.631
41DAP/39DAP	1.16734	0.386
42DAP/41DAP	1.11215	0.899
43DAP/42DAP	1.09463	0.999
47DAP/43DAP	1.02611	0.793
52DAP/47DAP	0.90686	0.693
57DAP/52DAP	1.03912	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88033	0.109
17DAP/reference	0.95639	0.536
27DAP/reference	1.56057	0.011
39DAP/reference	1.26002	0.434
41DAP/reference	1.21406	0.265
42DAP/reference	0.99159	0.531
43DAP/reference	1.31318	0.009
47DAP/reference	0.98612	0.473
52DAP/reference	1.46012	0.017
57DAP/reference	3.21502	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01391	0.923
27DAP/17DAP	1.01913	0.957
39DAP/27DAP	1.02685	0.685
41DAP/39DAP	1.01755	0.895
42DAP/41DAP	0.98173	0.781
43DAP/42DAP	0.97618	0.709
47DAP/43DAP	0.99341	0.977
52DAP/47DAP	0.9563	0.677
57DAP/52DAP	0.98767	0.793
57DAP/7DAP	0.89807	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99924	1
17DAP/reference	1.44847	0.123
27DAP/reference	0.99283	0.748
39DAP/reference	1.1334	0.779
41DAP/reference	1.52021	0.048
42DAP/reference	1.20706	0.1
43DAP/reference	1.42332	0.111
47DAP/reference	1.08021	0.745
52DAP/reference	1.27817	0.086
57DAP/reference	1.35391	0.158

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91348	0.412
17DAP/reference	1.13858	0.459
27DAP/reference	0.94864	0.352
39DAP/reference	0.98588	0.526
41DAP/reference	1.0609	0.781
42DAP/reference	1.07034	0.794
43DAP/reference	1.18366	0.719
47DAP/reference	1.08139	0.658
52DAP/reference	1.19053	0.559
57DAP/reference	0.88699	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89383	0.29
17DAP/reference	1.00452	0.934
27DAP/reference	1.28357	0.096
39DAP/reference	1.6612	0.028
41DAP/reference	1.37563	0.086
42DAP/reference	1.44874	0.134
43DAP/reference	1.19796	0.445
47DAP/reference	1.35807	0.12
52DAP/reference	1.25906	0.517
57DAP/reference	1.47224	0.014

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04318	0.966
26DAP/20DAP	0.98983	1
34DAP/26DAP	1.02484	1
51DAP/34DAP	0.93788	0.532
52DAP/51DAP	0.97119	1
53DAP/52DAP	0.98828	0.929
55DAP/53DAP	0.97611	0.775
57DAP/55DAP	0.98695	0.88
62DAP/57DAP	0.93743
68DAP/62DAP	1.19356	0.931
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.06818	0.391

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.85432	0.318
Mature Green Tomato/Ripe Tomato	0.92714	0.569
Immature Eggplant/Mature Eggplant	0.64026	0.134
Ripe Pepper/Ripe Tomato	0.83335	1
Mature Eggplant/Ripe Tomato	1.4647	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01857	1
1-1-2/M82	0.95739	1
12-2/M82	0.95967	0.955
12-4/M82	0.96822	1
1-3/M82	0.97426	0.501
2-1-1/M82	1.02934	0.439
2-1/M82	1.10086	1
2-6/M82	0.92876	0.501
3-2/M82	0.93577	0.752
4-1-1/M82	1.05434	1
4-1/M82	0.93043	1
4-3-2/M82	1.00993	1
4-3/M82	0.99026	1
5-3/M82	1.03312	1
6-2/M82	1.00702	1
6-3/M82	1.00693	1
7-1/M82	1.02057	1
7-2/M82	0.98757	1
9-3-2/M82	0.77007	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.38704	0.277
IL2-6/WTpooled	1.15737	0.584
IL7-5/WTpooled	1.12707	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.88081	0.71
IL1-4/WTpooled	1.00546	1
WT/WTpooled	0.99231	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	0.98321	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92175	1
DC3000/delta hrp 6h	0.83431	0.95
DC3000/delta hrp 12h	0.91846	1
DC3000/delta hrp 24h	1.12911	0.143

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15839	0.11
DC3000 delta B/DC3000 delta AB	1.07741	0.403

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05825	1
Exp 36h	1.32006	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	0.98032	1
Var 0h	1.22555	0.782
Var 12h I row2-row1	1.0958	0.544
Var 12h NI row2-row1	1.03218	1
Var 36h I row2-row1	1.11863	0.298
Var 36h NI row2-row1	0.90348	0.61
Var 60h I row2-row1	0.9557	0.374
Var 60h NI row2-row1	0.96338	1
Time course 0hI-0hNI	0.88725	0.092
Time course 12hI-12hNI	1.00208	0.9
Time course 36hI-36hNI	1.30888	0.009
Time course 60hI-60hNI	1.53853	0.008

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)	1.00027	0.931
transgenic ySAMdc/azygous control (breaker)	0.78824	0.142
transgenic ySAMdc/azygous control (red)	1.21768	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08215	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91569	1
Manapal/WT (break)	0.8535	1
Manapal/WT (red)	0.87423	0.242