Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.4.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.6956	0.187
27DAP/17DAP	1.38302	0.844
39DAP/27DAP	0.80535	0.421
41DAP/39DAP	0.96638	0.777
42DAP/41DAP	1.0936	0.974
43DAP/42DAP	1.05325	1
47DAP/43DAP	1.14252	0.715
52DAP/47DAP	1.7042	0.156
57DAP/52DAP	0.84937	0.836

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10468	0.126
17DAP/reference	0.96087	0.368
27DAP/reference	0.99709	0.763
39DAP/reference	1.01922	0.771
41DAP/reference	0.98664	0.814
42DAP/reference	1.01164	1
43DAP/reference	1.0718	0.287
47DAP/reference	1.35274	0.001
52DAP/reference	1.33981	0.014
57DAP/reference	1.23992	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8824	0.442
27DAP/17DAP	0.82967	0.39
39DAP/27DAP	1.2029	0.378
41DAP/39DAP	1.5988	0.027
42DAP/41DAP	0.81771	0.17
43DAP/42DAP	1.19243	0.134
47DAP/43DAP	1.146	0.127
52DAP/47DAP	1.30918	0.317
57DAP/52DAP	1.92523	0.042
57DAP/7DAP	1.49412	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90084	0.246
17DAP/reference	1.03093	1
27DAP/reference	0.84479	0.026
39DAP/reference	0.95743	0.307
41DAP/reference	0.83836	0.043
42DAP/reference	0.919	0.05
43DAP/reference	0.77534	0.023
47DAP/reference	0.98911	0.671
52DAP/reference	0.79443	0.04
57DAP/reference	0.86193	0.105

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06486	0.712
17DAP/reference	0.86658	0.208
27DAP/reference	1.01225	1
39DAP/reference	1.23051	0.116
41DAP/reference	1.09652	0.562
42DAP/reference	1.14975	0.121
43DAP/reference	1.00169	0.761
47DAP/reference	1.04745	0.426
52DAP/reference	0.91742	0.351
57DAP/reference	0.99525	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14939	0.493
17DAP/reference	0.94817	0.519
27DAP/reference	0.74336	0.038
39DAP/reference	0.84108	0.043
41DAP/reference	0.79398	0.058
42DAP/reference	1.00446	1
43DAP/reference	0.83989	0.15
47DAP/reference	1.19065	0.147
52DAP/reference	0.89711	0.376
57DAP/reference	1.63606	0.008

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28673	0.966
26DAP/20DAP	0.88252	0.317
34DAP/26DAP	1.04945	1
51DAP/34DAP	1.20856	0.829
52DAP/51DAP	1.10453	0.662
53DAP/52DAP	0.90614	0.772
55DAP/53DAP	0.91599	0.686
57DAP/55DAP	0.76048	0.281
62DAP/57DAP	0.95443
68DAP/62DAP	0.9884	0.939
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.23787	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.47743	0.075
Mature Green Tomato/Ripe Tomato	0.34372	0.042
Immature Eggplant/Mature Eggplant	1.58357	0.05
Ripe Pepper/Ripe Tomato	0.38592	0.224
Mature Eggplant/Ripe Tomato	0.70376	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.84362
1-1-2/M82	0.48611
12-2/M82	N/A	N/A
12-4/M82	0.82953	0.358
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	1.0753	1
4-3-2/M82	0.99553	1
4-3/M82	0.95355
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.03496	0.87
7-2/M82	N/A	N/A
9-3-2/M82	0.70699	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.55176	0.358
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.69872	0.418
IL12-4/WTpooled	0.55709	0.539
IL1-4/WTpooled	0.57611
WT/WTpooled	1.06336	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	1.21975	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88704	1
DC3000/delta hrp 6h	1.00467	0.95
DC3000/delta hrp 12h	0.96989	1
DC3000/delta hrp 24h	1.16318	0.136

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05198	0.598
DC3000 delta B/DC3000 delta AB	1.05562	0.544

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93359	1
Exp 36h	0.94627	0.82
Exp 60h	0.85084	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.06141	0.936
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.99329	0.862
transgenic ySAMdc/azygous control (breaker)	1.10572	0.248
transgenic ySAMdc/azygous control (red)	1.06485	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97366	0.093

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.21534	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.73203	0.087
Manapal/WT (break)	1.40676	0.183
Manapal/WT (red)	1.08341	1