Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.15.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00659	0.951
27DAP/17DAP	1.42187	0.641
39DAP/27DAP	0.90913	0.537
41DAP/39DAP	1.12451	0.649
42DAP/41DAP	1.08881	0.877
43DAP/42DAP	1.02914	1
47DAP/43DAP	1.18172	0.309
52DAP/47DAP	1.08343	0.767
57DAP/52DAP	1.00226	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00526	0.771
17DAP/reference	0.88657
27DAP/reference	0.93467	0.223
39DAP/reference	0.97376	0.624
41DAP/reference	0.99181	0.814
42DAP/reference	1.1383	0.009
43DAP/reference	0.99985	0.942
47DAP/reference	1.04227	0.243
52DAP/reference	1.15978	0.018
57DAP/reference	1.06772	0.114

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97209	0.679
27DAP/17DAP	0.90522	0.537
39DAP/27DAP	1.16261	0.626
41DAP/39DAP	0.94546	0.713
42DAP/41DAP	0.96282	0.654
43DAP/42DAP	1.01157	1
47DAP/43DAP	1.08701	0.681
52DAP/47DAP	1.02494	0.965
57DAP/52DAP	1.02387	0.907
57DAP/7DAP	0.93316	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91802	0.073
17DAP/reference	0.93774	0.049
27DAP/reference	0.9457	0.045
39DAP/reference	0.9208	0.011
41DAP/reference	0.97593	0.223
42DAP/reference	0.99964	0.828
43DAP/reference	0.91016	0.061
47DAP/reference	0.88016	0.079
52DAP/reference	0.89665	0.043
57DAP/reference	0.88743	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93806	0.306
17DAP/reference	0.93892	0.176
27DAP/reference	1.0193	1
39DAP/reference	1.08113	0.912
41DAP/reference	1.0596	0.814
42DAP/reference	1.00273	1
43DAP/reference	1.0027	0.892
47DAP/reference	0.98637	0.5
52DAP/reference	0.97483	0.407
57DAP/reference	0.96723	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91242	0.048
17DAP/reference	0.98727	0.681
27DAP/reference	0.95837	0.174
39DAP/reference	0.89864	0.054
41DAP/reference	0.98214	0.417
42DAP/reference	0.99421	0.816
43DAP/reference	0.96633	0.281
47DAP/reference	1.03366	0.424
52DAP/reference	0.9754	0.623
57DAP/reference	1.05754	0.47

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00805	0.966
26DAP/20DAP	0.95015	1
34DAP/26DAP	0.87194	0.596
51DAP/34DAP	1.15602	0.637
52DAP/51DAP	0.93758	1
53DAP/52DAP	0.98587	0.924
55DAP/53DAP	0.95143	0.293
57DAP/55DAP	1.2469	0.474
62DAP/57DAP	1.01297	1
68DAP/62DAP	1.03446	0.885
68DAP/14DAP	1.03998	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98792	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00345	0.908
Mature Green Tomato/Ripe Tomato	0.80895	0.132
Immature Eggplant/Mature Eggplant	1.03743	1
Ripe Pepper/Ripe Tomato	0.24064	0.224
Mature Eggplant/Ripe Tomato	0.22571	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9968	1
1-1-2/M82	0.95363	0.958
12-2/M82	0.97328	0.955
12-4/M82	0.8122	1
1-3/M82	0.95853	0.501
2-1-1/M82	0.79667	0.465
2-1/M82	1.41779	1
2-6/M82	1.00115	1
3-2/M82	1.01773	0.967
4-1-1/M82	0.96604	1
4-1/M82	1.04913	1
4-3-2/M82	0.81471	0.487
4-3/M82	0.95323	0.611
5-3/M82	0.96994	1
6-2/M82	0.96914	1
6-3/M82	1.00244	1
7-1/M82	1.01909	0.598
7-2/M82	0.99569	1
9-3-2/M82	1.23154	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79885	0.321
IL2-6/WTpooled	1.21353	0.395
IL7-5/WTpooled	1.21652	1
IL7-3/WTpooled	1.35067	1
IL12-4/WTpooled	1.27114	0.737
IL1-4/WTpooled	0.89143	1
WT/WTpooled	0.92526	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	1.11535	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.24849	1
DC3000/delta hrp 12h	0.96231	1
DC3000/delta hrp 24h	1.02279	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17269	0.134
DC3000 delta B/DC3000 delta AB	1.05456	0.535

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09786	1
Exp 36h	0.98349	1
Exp 60h	1.19296	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97049	1
Var 0h	10.6446	0.98
Var 12h I row2-row1	1.00941	1
Var 12h NI row2-row1	0.93998	0.82
Var 36h I row2-row1	1.36544	0.742
Var 36h NI row2-row1	0.83936	0.61
Var 60h I row2-row1	0.9346	0.952
Var 60h NI row2-row1	0.85594	0.304
Time course 0hI-0hNI	0.95129	0.702
Time course 12hI-12hNI	0.99327	1
Time course 36hI-36hNI	1.01239	0.841
Time course 60hI-60hNI	1.22221	0.096

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)	0.90594	0.306
transgenic ySAMdc/azygous control (breaker)	1.04236	1
transgenic ySAMdc/azygous control (red)	1.00373	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96221	0.12

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84303	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19712	0.14
Manapal/WT (break)	1.03384	1
Manapal/WT (red)	1.51712	0.164