Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.2.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15186	0.463
27DAP/17DAP	0.97696	0.973
39DAP/27DAP	1.17255	0.449
41DAP/39DAP	0.98816	0.934
42DAP/41DAP	1.47425	0.493
43DAP/42DAP	1.20567	0.793
47DAP/43DAP	1.24005	0.313
52DAP/47DAP	0.82046	0.539
57DAP/52DAP	0.95392	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93948	0.167
17DAP/reference	0.97056	0.503
27DAP/reference	0.96186	0.471
39DAP/reference	0.97382	0.587
41DAP/reference	0.93735	0.542
42DAP/reference	1.04358	0.931
43DAP/reference	1.02603	0.678
47DAP/reference	0.94489	0.137
52DAP/reference	0.98207	0.449
57DAP/reference	1.06167	0.496

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.48323	0.036
27DAP/17DAP	1.00421	1
39DAP/27DAP	0.85264	0.136
41DAP/39DAP	1.25204	0.682
42DAP/41DAP	0.92585	0.456
43DAP/42DAP	1.18233	0.061
47DAP/43DAP	0.94696	0.734
52DAP/47DAP	1.08505	0.749
57DAP/52DAP	0.92427	0.448
57DAP/7DAP	0.88147	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29065	0.166
17DAP/reference	1.23325	0.477
27DAP/reference	1.09016	1
39DAP/reference	1.02443	0.74
41DAP/reference	1.16851	0.507
42DAP/reference	0.97543	0.506
43DAP/reference	0.95962	0.421
47DAP/reference	1.23163	0.304
52DAP/reference	1.48967	0.013
57DAP/reference	1.14125	0.066

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00259	0.97
17DAP/reference	0.8509	0.023
27DAP/reference	0.9898	0.642
39DAP/reference	0.93117	0.392
41DAP/reference	1.03284	0.831
42DAP/reference	0.90149	0.028
43DAP/reference	0.78192	0.075
47DAP/reference	0.85897	0.011
52DAP/reference	0.92151	0.027
57DAP/reference	0.80964	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01165	1
17DAP/reference	1.07938	0.825
27DAP/reference	1.29415	0.143
39DAP/reference	1.16569	0.254
41DAP/reference	1.26679	0.249
42DAP/reference	1.31049	0.03
43DAP/reference	1.32687	0.032
47DAP/reference	1.07897	0.68
52DAP/reference	1.07312	0.851
57DAP/reference	1.45236	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06305	0.966
26DAP/20DAP	1.3298	0.409
34DAP/26DAP	0.89396	0.531
51DAP/34DAP	1.05921	0.795
52DAP/51DAP	0.69542	0.151
53DAP/52DAP	1.21114	0.284
55DAP/53DAP	1.06144	1
57DAP/55DAP	1.05758	0.925
62DAP/57DAP	1.44274	0.005
68DAP/62DAP	1.32251	0.265
68DAP/14DAP	1.92785	0.033

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.85424	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.57854	0.175
Mature Green Tomato/Ripe Tomato	1.06752
Immature Eggplant/Mature Eggplant	1.13091	0.3
Ripe Pepper/Ripe Tomato	0.62046	0.224
Mature Eggplant/Ripe Tomato	0.5761	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05829	0.742
1-1-2/M82	1.03257	1
12-2/M82	1.26898
12-4/M82	1.184	1
1-3/M82	0.98053	1
2-1-1/M82	0.93985
2-1/M82	N/A	N/A
2-6/M82	1.03102	1
3-2/M82	1.27128
4-1-1/M82	1.12443	1
4-1/M82	1.07509
4-3-2/M82	1.3796	1
4-3/M82	0.90543	1
5-3/M82	0.99535	1
6-2/M82	0.90082	0.497
6-3/M82	0.89507	1
7-1/M82	N/A	N/A
7-2/M82	0.99055	1
9-3-2/M82	1.53707	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.69138	0.243
IL2-6/WTpooled	0.83047	0.383
IL7-5/WTpooled	1.23796	0.792
IL7-3/WTpooled	0.77146	0.298
IL12-4/WTpooled	1.01307	0.839
IL1-4/WTpooled	1.00751	1
WT/WTpooled	0.92011	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	1.04054	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00129	1
DC3000/delta hrp 6h	0.99539	0.95
DC3000/delta hrp 12h	1.00457	1
DC3000/delta hrp 24h	0.8376	0.088

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.76694	0.151
DC3000 delta B/DC3000 delta AB	0.71499	0.091

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01228	1
Exp 36h	0.90629	0.879
Exp 60h	0.81659	0.522

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	1.18224	0.594
Var 12h I row2-row1	0.83355	0.353
Var 12h NI row2-row1	1.21304	0.34
Var 36h I row2-row1	1.02448	1
Var 36h NI row2-row1	1.17908	1
Var 60h I row2-row1	0.85913	0.439
Var 60h NI row2-row1	0.90874	0.866
Time course 0hI-0hNI	0.94709	0.643
Time course 12hI-12hNI	1.08943	0.603
Time course 36hI-36hNI	1.05474	1
Time course 60hI-60hNI	1.01411	1

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)	0.94092	0.409
transgenic ySAMdc/azygous control (breaker)	1.04294	1
transgenic ySAMdc/azygous control (red)	0.96444	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98042	0.486

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.45519	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98221	1
Manapal/WT (break)	0.87601	1
Manapal/WT (red)	1.19393	0.222