Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.1.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.73466	0.056
27DAP/17DAP	1.10956	0.88
39DAP/27DAP	0.83524	0.414
41DAP/39DAP	1.04905	0.765
42DAP/41DAP	0.81795	0.774
43DAP/42DAP	0.97344	0.912
47DAP/43DAP	0.89163	0.603
52DAP/47DAP	0.95528	0.765
57DAP/52DAP	1.07918	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86745	0.06
17DAP/reference	1.05244	0.258
27DAP/reference	0.9833	0.694
39DAP/reference	1.00589	0.8
41DAP/reference	0.96032	0.341
42DAP/reference	0.90198	0.05
43DAP/reference	1.02758	0.758
47DAP/reference	0.97306	0.345
52DAP/reference	0.94961	0.33
57DAP/reference	0.88594	0.124

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11293	0.414
27DAP/17DAP	0.98486	0.878
39DAP/27DAP	0.88922	0.507
41DAP/39DAP	1.08876	0.565
42DAP/41DAP	0.93699	0.625
43DAP/42DAP	0.90184	0.116
47DAP/43DAP	0.92882	0.373
52DAP/47DAP	0.95997	0.807
57DAP/52DAP	0.88846	0.342
57DAP/7DAP	1.25216	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82925	0.078
17DAP/reference	0.74753	0.018
27DAP/reference	0.73328	0.01
39DAP/reference	0.9022	0.126
41DAP/reference	0.6397	0.013
42DAP/reference	0.6025	0.013
43DAP/reference	0.56861	0.011
47DAP/reference	0.79189	0.101
52DAP/reference	0.58918	0.016
57DAP/reference	0.58348	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0481	0.589
17DAP/reference	1.11711	0.104
27DAP/reference	1.03912	0.757
39DAP/reference	0.91021	0.221
41DAP/reference	0.93266	0.145
42DAP/reference	0.93752	0.289
43DAP/reference	1.02657	0.865
47DAP/reference	0.88908	0.073
52DAP/reference	0.99452	0.713
57DAP/reference	0.95416	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82856	0.057
17DAP/reference	0.89011	0.194
27DAP/reference	0.73189	0.025
39DAP/reference	0.69855	0.012
41DAP/reference	0.81933	0.019
42DAP/reference	0.69603	0.015
43DAP/reference	0.74011	0.018
47DAP/reference	0.86178	0.011
52DAP/reference	0.69393	0.096
57DAP/reference	0.79029	0.078

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.18704	0.56
26DAP/20DAP	0.86607	0.244
34DAP/26DAP	1.02912	1
51DAP/34DAP	1.21466	0.241
52DAP/51DAP	1.01795	0.873
53DAP/52DAP	1.02283	0.91
55DAP/53DAP	1.09707	0.755
57DAP/55DAP	0.88954	0.606
62DAP/57DAP	1.00359
68DAP/62DAP	1.38644	0.028
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09561	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.16016	0.287
Mature Green Tomato/Ripe Tomato	3.42937	0.02
Immature Eggplant/Mature Eggplant	1.02588	0.683
Ripe Pepper/Ripe Tomato	1.37367	1
Mature Eggplant/Ripe Tomato	1.34462	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.00133	1
12-2/M82	N/A	N/A
12-4/M82	0.87901	1
1-3/M82	0.65022
2-1-1/M82	0.73497
2-1/M82	N/A	N/A
2-6/M82	1.16531
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	0.56899
4-3/M82	0.52851
5-3/M82	1.17024	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.04973
7-2/M82	1.0869	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01522	1
IL2-6/WTpooled	0.76314
IL7-5/WTpooled	2.59475
IL7-3/WTpooled	1.02248	1
IL12-4/WTpooled	0.8869	0.71
IL1-4/WTpooled	1.10619	1
WT/WTpooled	1.0356	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	0.94846	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90196	1
DC3000/delta hrp 6h	1.07728	1
DC3000/delta hrp 12h	1.08445	1
DC3000/delta hrp 24h	0.90501	0.534

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.77362	0.036
DC3000 delta B/DC3000 delta AB	0.99374	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99686	1
Exp 36h	0.85268	0.699
Exp 60h	0.66871	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95348	1
Var 0h	0.93823	1
Var 12h I row2-row1	1.02647	0.692
Var 12h NI row2-row1	0.9107	0.713
Var 36h I row2-row1	0.96761	1
Var 36h NI row2-row1	1.39821	0.482
Var 60h I row2-row1	1.18823	1
Var 60h NI row2-row1	1.12473	0.904
Time course 0hI-0hNI	1.0046	1
Time course 12hI-12hNI	0.92979	0.53
Time course 36hI-36hNI	0.85888	0.071
Time course 60hI-60hNI	0.71944	0.008

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)	1.02091	0.748
transgenic ySAMdc/azygous control (breaker)	0.64445	0.118
transgenic ySAMdc/azygous control (red)	1.12315	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05639	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.71213	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04201	0.093
Manapal/WT (break)	1.31164	0.183
Manapal/WT (red)	1.8347	0.222