Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.20.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0543	0.947
27DAP/17DAP	1.01862	1
39DAP/27DAP	0.80593	0.399
41DAP/39DAP	1.49743	0.352
42DAP/41DAP	0.88494	1
43DAP/42DAP	0.97969	0.93
47DAP/43DAP	0.9993	0.859
52DAP/47DAP	1.11279	0.847
57DAP/52DAP	0.91955	0.895

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05964	0.662
17DAP/reference	1.0828	0.185
27DAP/reference	1.04579	0.548
39DAP/reference	1.01184	0.857
41DAP/reference	1.11884	0.808
42DAP/reference	0.93988	0.211
43DAP/reference	1.06898	0.269
47DAP/reference	0.96917	0.445
52DAP/reference	0.79513	0.016
57DAP/reference	0.89025	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90103	0.299
27DAP/17DAP	1.06504	0.909
39DAP/27DAP	1.08614	0.532
41DAP/39DAP	1.0673	0.921
42DAP/41DAP	1.06039	0.904
43DAP/42DAP	1.09976	0.513
47DAP/43DAP	1.12116	0.414
52DAP/47DAP	0.94947	0.777
57DAP/52DAP	1.02558	1
57DAP/7DAP	1.17131	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83327	0.076
17DAP/reference	0.77713	0.012
27DAP/reference	0.73535	0.01
39DAP/reference	0.78679	0.011
41DAP/reference	0.79851	0.029
42DAP/reference	0.71632	0.01
43DAP/reference	0.7283	0.011
47DAP/reference	0.95596	0.671
52DAP/reference	0.74204	0.021
57DAP/reference	0.72955	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07048	0.384
17DAP/reference	1.06694	0.584
27DAP/reference	0.83001	0.074
39DAP/reference	0.81159	0.058
41DAP/reference	0.83569	0.07
42DAP/reference	0.93151	0.289
43DAP/reference	1.17205	0.142
47DAP/reference	0.9299	0.24
52DAP/reference	0.98199	0.469
57DAP/reference	1.23733	0.108

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82777	0.04
17DAP/reference	0.99562	0.763
27DAP/reference	0.788	0.032
39DAP/reference	0.7941	0.029
41DAP/reference	0.8098	0.023
42DAP/reference	0.79421	0.016
43DAP/reference	0.76733	0.025
47DAP/reference	1.0143	1
52DAP/reference	0.80453	0.172
57DAP/reference	0.73648	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01377	0.966
26DAP/20DAP	1.18584	0.427
34DAP/26DAP	0.64894	0.247
51DAP/34DAP	0.68018	0.067
52DAP/51DAP	1.42889	0.058
53DAP/52DAP	1.02151	0.921
55DAP/53DAP	1.07714	0.693
57DAP/55DAP	1.04363	0.947
62DAP/57DAP	1.19976	0.303
68DAP/62DAP	1.01345	0.939
68DAP/14DAP	0.9339	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82289	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.97002	0.611
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	1.00681	1
1-1-2/M82	0.8138	0.958
12-2/M82	1.15965	1
12-4/M82	1.09004	1
1-3/M82	0.84983	0.376
2-1-1/M82	1.30247
2-1/M82	N/A	N/A
2-6/M82	1.07667	0.695
3-2/M82	0.84381	0.752
4-1-1/M82	1.02316	1
4-1/M82	0.96961	1
4-3-2/M82	0.94798	1
4-3/M82	1.07295
5-3/M82	0.9302	1
6-2/M82	0.86896
6-3/M82	0.97141	1
7-1/M82	0.89247
7-2/M82	0.96354	0.881
9-3-2/M82	0.99859

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.19779	0.277
IL2-6/WTpooled	0.9279	1
IL7-5/WTpooled	0.65308
IL7-3/WTpooled	0.89584	1
IL12-4/WTpooled	1.05371	0.737
IL1-4/WTpooled	0.89854	0.834
WT/WTpooled	1.11544	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99304	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.27692	1
DC3000/delta hrp 24h	1.02067	0.84

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	0.96452	0.787

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	2.01062	1
Exp 60h	1.2141	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01734	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.08384	0.283
Var 12h NI row2-row1	0.85851	0.627
Var 36h I row2-row1	0.66025	0.805
Var 36h NI row2-row1	0.91545	0.743
Var 60h I row2-row1	1.15249	0.562
Var 60h NI row2-row1	1.33398	0.904
Time course 0hI-0hNI	1.1575	0.63
Time course 12hI-12hNI	1.02029	0.867
Time course 36hI-36hNI	0.89229	0.132
Time course 60hI-60hNI	1.10818	0.115

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00081	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.06044	0.238

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)	1.04227	1