Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.7.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20367	0.904
27DAP/17DAP	0.96388	0.945
39DAP/27DAP	0.83451	0.482
41DAP/39DAP	1.24709	0.742
42DAP/41DAP	1.1009	0.899
43DAP/42DAP	0.89212	0.801
47DAP/43DAP	1.08972	0.689
52DAP/47DAP	1.21111	0.624
57DAP/52DAP	0.90098	0.8

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83492	0.028
17DAP/reference	0.86647	0.104
27DAP/reference	0.95143	0.417
39DAP/reference	0.90952	0.292
41DAP/reference	0.98421	0.814
42DAP/reference	0.77501	0.001
43DAP/reference	1.07186	0.678
47DAP/reference	0.87852	0.046
52DAP/reference	0.91234	0.23
57DAP/reference	0.96661	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07527	0.736
27DAP/17DAP	1.17347	0.724
39DAP/27DAP	0.91251	0.529
41DAP/39DAP	0.99223	1
42DAP/41DAP	0.9556	0.684
43DAP/42DAP	0.78366	0.029
47DAP/43DAP	0.98699	0.877
52DAP/47DAP	1.19814	0.524
57DAP/52DAP	1.2803	0.929
57DAP/7DAP	1.19948	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82626	0.129
17DAP/reference	0.95012	0.295
27DAP/reference	1.00935	1
39DAP/reference	0.75491	0.034
41DAP/reference	0.82941	0.043
42DAP/reference	0.91361	0.178
43DAP/reference	0.82303	0.049
47DAP/reference	0.83428	0.101
52DAP/reference	0.98991	0.621
57DAP/reference	1.00035	0.719

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79425	0.043
17DAP/reference	0.89632	0.245
27DAP/reference	0.95807	0.438
39DAP/reference	0.87499	0.072
41DAP/reference	0.99428	0.557
42DAP/reference	0.84981	0.121
43DAP/reference	1.16311	0.713
47DAP/reference	0.91935	0.12
52DAP/reference	1.02924	0.988
57DAP/reference	0.93705	0.226

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74633	0.03
17DAP/reference	0.90601	0.348
27DAP/reference	0.91548	0.397
39DAP/reference	0.80971	0.271
41DAP/reference	1.06295	0.961
42DAP/reference	0.90452	0.361
43DAP/reference	0.84195	0.125
47DAP/reference	0.9391	0.357
52DAP/reference	0.89739	0.395
57DAP/reference	0.84181	0.098

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14694	0.966
26DAP/20DAP	0.96978	1
34DAP/26DAP	0.98656	0.927
51DAP/34DAP	1.07319	0.775
52DAP/51DAP	0.81911	1
53DAP/52DAP	1.40955	0.1
55DAP/53DAP	1.07491	0.806
57DAP/55DAP	1.17678	0.626
62DAP/57DAP	0.95333	0.994
68DAP/62DAP	1.21757	0.589
68DAP/14DAP	1.03747	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12903	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.95632	0.569
Immature Eggplant/Mature Eggplant	3.30078
Ripe Pepper/Ripe Tomato	0.98547	1
Mature Eggplant/Ripe Tomato	0.88694	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13613
1-1-2/M82	1.226	1
12-2/M82	N/A	N/A
12-4/M82	0.98635
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	0.9979
3-2/M82	0.95382
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	0.86921
5-3/M82	1.05334	1
6-2/M82	1.27654
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00241
IL2-6/WTpooled	1.39403	0.46
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.3828	0.362
IL12-4/WTpooled	1.15256	0.673
IL1-4/WTpooled	1.08756
WT/WTpooled	0.98037	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	0.90243	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99132	1
DC3000/delta hrp 6h	0.74222	0.81
DC3000/delta hrp 12h	0.91772	1
DC3000/delta hrp 24h	0.90197	0.292

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	N/A	N/A
Exp 36h	1.67518	1
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	0.98258	1
Var 0h	0.56923	0.216
Var 12h I row2-row1	0.94255	0.77
Var 12h NI row2-row1	1.03793	1
Var 36h I row2-row1	0.85043	0.805
Var 36h NI row2-row1	0.85043	1
Var 60h I row2-row1	0.8032	0.439
Var 60h NI row2-row1	1.24785	0.691
Time course 0hI-0hNI	1.02205	0.833
Time course 12hI-12hNI	0.90744	0.217
Time course 36hI-36hNI	1.04933	0.881
Time course 60hI-60hNI	1.11019	0.187

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)	0.98882	0.862
transgenic ySAMdc/azygous control (breaker)	1.35096	0.178
transgenic ySAMdc/azygous control (red)	0.98615	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03724	0.234

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03144	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85423	1
Manapal/WT (break)	0.89426	1
Manapal/WT (red)	1.01226	1