Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.2.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18462	0.951
27DAP/17DAP	1.32543	0.73
39DAP/27DAP	0.83369	0.522
41DAP/39DAP	0.89312	0.619
42DAP/41DAP	1.13754	0.926
43DAP/42DAP	1.00231	0.937
47DAP/43DAP	0.93509	0.76
52DAP/47DAP	1.04875	0.982
57DAP/52DAP	1.21037	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98622	0.63
17DAP/reference	0.92357	0.208
27DAP/reference	1.36043	0.011
39DAP/reference	1.26273	0.029
41DAP/reference	1.08555	0.421
42DAP/reference	1.21061	0.001
43DAP/reference	1.14883	0.34
47DAP/reference	1.29831	0.001
52DAP/reference	1.24504	0.134
57DAP/reference	0.95132	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18533	0.326
27DAP/17DAP	1.19676	0.533
39DAP/27DAP	1.0635	0.677
41DAP/39DAP	1.08475	0.55
42DAP/41DAP	0.76572	0.015
43DAP/42DAP	1.05058	0.664
47DAP/43DAP	0.98358	0.93
52DAP/47DAP	0.90648	0.9
57DAP/52DAP	0.86607	0.334
57DAP/7DAP	1.72572	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.65191	0.129
17DAP/reference	0.91532	0.167
27DAP/reference	0.92522	0.028
39DAP/reference	0.79501	0.025
41DAP/reference	0.82942	0.05
42DAP/reference	0.92584	0.222
43DAP/reference	1.0661	0.707
47DAP/reference	1.00782	1
52DAP/reference	0.87674	0.213
57DAP/reference	1.05205	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98025	0.736
17DAP/reference	1.12019	0.484
27DAP/reference	1.4111	0.038
39DAP/reference	1.61554	0.013
41DAP/reference	1.28044	0.109
42DAP/reference	1.53507	0.024
43DAP/reference	1.46706	0.167
47DAP/reference	1.18812	0.046
52DAP/reference	1.51708	0.01
57DAP/reference	1.05506	0.567

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81329	0.057
17DAP/reference	1.06077	0.855
27DAP/reference	0.81424	0.069
39DAP/reference	0.91793	0.246
41DAP/reference	0.98425	0.618
42DAP/reference	1.25867	0.4
43DAP/reference	1.30836	0.79
47DAP/reference	1.31705	0.025
52DAP/reference	1.02684	0.89
57DAP/reference	1.92285	0.049

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09898	0.966
26DAP/20DAP	0.75871	0.317
34DAP/26DAP	1.5353	0.819
51DAP/34DAP	0.88301	0.703
52DAP/51DAP	1.27962	0.454
53DAP/52DAP	1.658	0.23
55DAP/53DAP	1.05108	1
57DAP/55DAP	1.00745	0.795
62DAP/57DAP	0.99977	1
68DAP/62DAP	1.41817	0.017
68DAP/14DAP	1.17243	0.059

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.39043	0.326

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.90698	0.551
Mature Green Tomato/Ripe Tomato	1.34176	0.632
Immature Eggplant/Mature Eggplant	1.0326	0.462
Ripe Pepper/Ripe Tomato	1.61995	0.256
Mature Eggplant/Ripe Tomato	1.45114	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08029	0.877
1-1-2/M82	0.99815
12-2/M82	1.26058
12-4/M82	0.97252	0.619
1-3/M82	0.64865	0.441
2-1-1/M82	1.0047
2-1/M82	0.9531
2-6/M82	0.92677	1
3-2/M82	0.77645
4-1-1/M82	1.23293
4-1/M82	1.80259
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.82566	0.642
6-2/M82	0.54117
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.79401	0.565
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.73748
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.63611	1
IL7-3/WTpooled	0.83103	1
IL12-4/WTpooled	1.26179	0.737
IL1-4/WTpooled	0.84003	0.699
WT/WTpooled	1.15921	0.794

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	1.14441	0.139

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09273	0.692
DC3000/delta hrp 6h	0.94241	0.95
DC3000/delta hrp 12h	0.99427	1
DC3000/delta hrp 24h	0.86859	0.252

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	1.07862	1
Exp 36h	1.03536	1
Exp 60h	1.11875	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.12179	1
Var 0h	1.02387	0.936
Var 12h I row2-row1	0.8883	0.565
Var 12h NI row2-row1	1.01511	1
Var 36h I row2-row1	0.90067	1
Var 36h NI row2-row1	0.98376	0.791
Var 60h I row2-row1	0.95596	0.582
Var 60h NI row2-row1	0.95346	1
Time course 0hI-0hNI	1.0351	0.867
Time course 12hI-12hNI	1.00201	1
Time course 36hI-36hNI	1.15023	0.114
Time course 60hI-60hNI	1.69962	0.06

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)	0.89721	0.314
transgenic ySAMdc/azygous control (breaker)	0.63444	0.142
transgenic ySAMdc/azygous control (red)	0.8928	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0272	0.247

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75807	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89411	1
Manapal/WT (break)	1.05893	1
Manapal/WT (red)	1.03042	1