Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.1.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.41903	0.018
27DAP/17DAP	0.65482	0.29
39DAP/27DAP	1.12939	1
41DAP/39DAP	0.96941	0.879
42DAP/41DAP	2.17439	0.619
43DAP/42DAP	1.0422	0.94
47DAP/43DAP	0.96068	0.693
52DAP/47DAP	1.43061	0.994
57DAP/52DAP	0.91617	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0994	0.814
17DAP/reference	1.11887	0.047
27DAP/reference	0.93175	0.187
39DAP/reference	0.97036	0.487
41DAP/reference	0.96826	0.667
42DAP/reference	0.92521	0.085
43DAP/reference	0.98362	0.708
47DAP/reference	0.90569	0.035
52DAP/reference	0.86878	0.121
57DAP/reference	0.84684	0.074

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20039	0.947
27DAP/17DAP	1.34397	0.262
39DAP/27DAP	0.74258	0.037
41DAP/39DAP	1.18232	0.861
42DAP/41DAP	0.76489	0.093
43DAP/42DAP	1.14606	0.513
47DAP/43DAP	0.98385	0.961
52DAP/47DAP	1.30851	0.66
57DAP/52DAP	1.21748	0.978
57DAP/7DAP	0.97407	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9555	0.326
17DAP/reference	1.09049	0.269
27DAP/reference	1.06514	1
39DAP/reference	0.95542	0.474
41DAP/reference	0.91782	0.469
42DAP/reference	1.04687	1
43DAP/reference	1.16335	0.483
47DAP/reference	0.9443	0.504
52DAP/reference	0.85152	0.035
57DAP/reference	0.9605	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19298	0.265
17DAP/reference	1.06232	0.723
27DAP/reference	0.90862	0.129
39DAP/reference	0.94039	0.257
41DAP/reference	0.92621	0.137
42DAP/reference	0.74632	0.018
43DAP/reference	0.96751	0.507
47DAP/reference	0.89246	0.087
52DAP/reference	0.93133	0.131
57DAP/reference	1.01565	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1231	0.237
17DAP/reference	1.10941	0.371
27DAP/reference	1.27737	0.025
39DAP/reference	0.94206	0.299
41DAP/reference	1.04	1
42DAP/reference	0.7773	0.087
43DAP/reference	0.80752	0.15
47DAP/reference	1.0008	0.687
52DAP/reference	0.93072	0.327
57DAP/reference	0.78028	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12699	0.966
26DAP/20DAP	1.09888	1
34DAP/26DAP	1.23958	0.819
51DAP/34DAP	1.28972	0.535
52DAP/51DAP	1.31407	0.708
53DAP/52DAP	0.93211
55DAP/53DAP	1.35658	0.341
57DAP/55DAP	1.16639	0.793
62DAP/57DAP	1.33872	0.445
68DAP/62DAP	1.08151	0.85
68DAP/14DAP	0.78177	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79553	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.19718	0.089
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	3.5658	0.05
Ripe Pepper/Ripe Tomato	1.18617
Mature Eggplant/Ripe Tomato	35.6609	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.92084
12-2/M82	0.7278
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.70105
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.47695	0.243
IL2-6/WTpooled	1.12567	0.659
IL7-5/WTpooled	0.66718	1
IL7-3/WTpooled	0.36374	0.294
IL12-4/WTpooled	0.82557	1
IL1-4/WTpooled	0.74151	0.457
WT/WTpooled	1.03073	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	0.82963	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94822	1
DC3000/delta hrp 6h	0.95654	0.95
DC3000/delta hrp 12h	0.79682	1
DC3000/delta hrp 24h	7.87819	0.022

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.76983	0.042
DC3000 delta B/DC3000 delta AB	1.6886	0.069

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8366	1
Exp 36h	1.65647	0.693
Exp 60h	2.07808	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02271	1
Var 0h	0.46674	0.457
Var 12h I row2-row1	0.7593	0.39
Var 12h NI row2-row1	1.07899	0.649
Var 36h I row2-row1	0.91837	1
Var 36h NI row2-row1	1.10225	1
Var 60h I row2-row1	0.93064	0.832
Var 60h NI row2-row1	0.97168	1
Time course 0hI-0hNI	1.0025	1
Time course 12hI-12hNI	0.8501	0.05
Time course 36hI-36hNI	0.8486	0.023
Time course 60hI-60hNI	0.76889	0.081

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)	1.04711	0.3
transgenic ySAMdc/azygous control (breaker)	1.43603	0.248
transgenic ySAMdc/azygous control (red)	1.16093	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0112	0.556

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.39204	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89911	1
Manapal/WT (break)	1.26559	0.381
Manapal/WT (red)	0.95127	0.728