Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.14.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92153	0.61
27DAP/17DAP	0.91999	0.831
39DAP/27DAP	0.81228	0.495
41DAP/39DAP	1.67901	0.212
42DAP/41DAP	1.16432	0.938
43DAP/42DAP	0.9157	0.801
47DAP/43DAP	1.01289	0.828
52DAP/47DAP	1.87644	0.362
57DAP/52DAP	0.71286	0.462

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00835	1
17DAP/reference	0.95729	0.26
27DAP/reference	0.96137	0.349
39DAP/reference	1.02843	0.615
41DAP/reference	1.0291	0.808
42DAP/reference	0.94616	0.188
43DAP/reference	1.07256	0.175
47DAP/reference	0.94572	0.098
52DAP/reference	1.0009	0.73
57DAP/reference	1.07034	0.744

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89717	0.363
27DAP/17DAP	0.96725	0.878
39DAP/27DAP	1.16714	0.394
41DAP/39DAP	1.21265	0.719
42DAP/41DAP	0.95545	0.649
43DAP/42DAP	1.04447	0.699
47DAP/43DAP	1.04942	0.906
52DAP/47DAP	0.96497	0.884
57DAP/52DAP	0.96425	0.603
57DAP/7DAP	1.39671	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0897	0.385
17DAP/reference	0.87169	0.072
27DAP/reference	0.89167	0.015
39DAP/reference	0.96112	0.307
41DAP/reference	0.84247	0.05
42DAP/reference	0.77331	0.011
43DAP/reference	0.79876	0.03
47DAP/reference	0.79347	0.066
52DAP/reference	0.79092	0.028
57DAP/reference	0.8051	0.097

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.246	0.238
17DAP/reference	1.15908	0.066
27DAP/reference	1.05603	1
39DAP/reference	0.96829	0.416
41DAP/reference	0.85348	0.064
42DAP/reference	1.01374	1
43DAP/reference	1.13314	0.417
47DAP/reference	1.0583	0.212
52DAP/reference	1.11009	0.343
57DAP/reference	1.37078	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9325	0.092
17DAP/reference	1.01424	0.757
27DAP/reference	0.95343	0.243
39DAP/reference	0.94995	0.024
41DAP/reference	0.96939	0.512
42DAP/reference	0.89029	0.108
43DAP/reference	0.80731	0.039
47DAP/reference	1.04907	0.901
52DAP/reference	1.07302	0.876
57DAP/reference	0.81181	0.064

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99096	1
26DAP/20DAP	0.82273	0.317
34DAP/26DAP	0.95662	0.917
51DAP/34DAP	1.02008	0.988
52DAP/51DAP	1.12776	0.253
53DAP/52DAP	0.96788	0.844
55DAP/53DAP	1.21489	0.256
57DAP/55DAP	1.05789	0.947
62DAP/57DAP	1.4176	0.217
68DAP/62DAP	0.8138	0.314
68DAP/14DAP	0.85539	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82934	0.155

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.76685	0.256
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	1.03253	1
1-1-2/M82	0.88506	1
12-2/M82	1.15173	1
12-4/M82	1.40897
1-3/M82	0.81466	0.501
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.36039	0.364
3-2/M82	N/A	N/A
4-1-1/M82	1.07006	1
4-1/M82	0.7638	1
4-3-2/M82	1.08127
4-3/M82	0.80297	1
5-3/M82	0.99724	1
6-2/M82	0.83109
6-3/M82	0.94102	1
7-1/M82	N/A	N/A
7-2/M82	1.09393	1
9-3-2/M82	0.86089	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.20835	0.365
IL2-6/WTpooled	0.67446	0.337
IL7-5/WTpooled	1.07075	0.792
IL7-3/WTpooled	1.25777	0.362
IL12-4/WTpooled	1.09848	0.673
IL1-4/WTpooled	0.96108	0.834
WT/WTpooled	1.02293	0.686

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	1.27394	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0301	0.921
DC3000/delta hrp 6h	0.51056
DC3000/delta hrp 12h	1.09198	1
DC3000/delta hrp 24h	1.17774	0.336

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	0.83258	0.075

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94013	1
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	0.95964
Var 0h	1.12696	0.311
Var 12h I row2-row1	1.26878	0.544
Var 12h NI row2-row1	0.74329	0.488
Var 36h I row2-row1	0.8458	0.805
Var 36h NI row2-row1	0.95942	0.706
Var 60h I row2-row1	1.36698	0.562
Var 60h NI row2-row1	1.34534	0.904
Time course 0hI-0hNI	1.15962	0.603
Time course 12hI-12hNI	1.06245	0.73
Time course 36hI-36hNI	1.00752	0.89
Time course 60hI-60hNI	1.20375	0.08

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)	1.11401	1
transgenic ySAMdc/azygous control (breaker)	1.04224	1
transgenic ySAMdc/azygous control (red)	1.16756	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01236	0.421

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03643	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.08349	1