Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.13.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08729	0.863
27DAP/17DAP	1.13723	0.905
39DAP/27DAP	1.17124	0.759
41DAP/39DAP	1.24991	0.284
42DAP/41DAP	1.06201	0.978
43DAP/42DAP	1.12207	0.982
47DAP/43DAP	1.10854	0.293
52DAP/47DAP	1.32068	0.543
57DAP/52DAP	1.16475	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95171	0.336
17DAP/reference	1.05235	0.138
27DAP/reference	0.98266	0.61
39DAP/reference	1.12506	0.093
41DAP/reference	1.02003	0.808
42DAP/reference	1.17923	0.007
43DAP/reference	1.23529	0.009
47DAP/reference	1.30677	0.001
52DAP/reference	1.05507	0.84
57DAP/reference	1.08102	0.447

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00825	0.975
27DAP/17DAP	1.09389	0.632
39DAP/27DAP	1.07395	0.403
41DAP/39DAP	0.95741	0.849
42DAP/41DAP	1.06478	0.436
43DAP/42DAP	1.01816	0.699
47DAP/43DAP	1.06076	0.65
52DAP/47DAP	1.08199	0.666
57DAP/52DAP	1.08816	0.486
57DAP/7DAP	1.16388	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93803	0.061
17DAP/reference	0.93611	0.012
27DAP/reference	1.11264	0.012
39DAP/reference	1.01348	0.669
41DAP/reference	1.15189	0.104
42DAP/reference	1.17455	0.009
43DAP/reference	1.10134	0.178
47DAP/reference	1.21479	0.062
52DAP/reference	0.97177	0.232
57DAP/reference	0.98433	0.426

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92754	0.17
17DAP/reference	1.01402	0.756
27DAP/reference	0.95193	0.317
39DAP/reference	0.93857	0.33
41DAP/reference	1.30275	0.112
42DAP/reference	1.18018	0.18
43DAP/reference	0.9324	0.352
47DAP/reference	1.0886	0.301
52DAP/reference	0.93536	0.031
57DAP/reference	0.98309	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.965	0.249
17DAP/reference	1.02865	0.595
27DAP/reference	0.97833	0.257
39DAP/reference	0.93322	0.026
41DAP/reference	0.99494	0.754
42DAP/reference	1.14378	0.052
43DAP/reference	1.07443	0.418
47DAP/reference	1.41033	0.012
52DAP/reference	1.29784	0.077
57DAP/reference	1.43515	0.033

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96648	0.981
26DAP/20DAP	0.96527	1
34DAP/26DAP	0.92309	0.256
51DAP/34DAP	0.88569	0.197
52DAP/51DAP	1.00115	1
53DAP/52DAP	0.95081	0.649
55DAP/53DAP	0.97125	0.735
57DAP/55DAP	0.95001	0.823
62DAP/57DAP	1.09917	0.133
68DAP/62DAP	1.08118	1
68DAP/14DAP	0.89033	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09618	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.53342
Mature Green Tomato/Ripe Tomato	0.67275	0.072
Immature Eggplant/Mature Eggplant	0.96083	0.808
Ripe Pepper/Ripe Tomato	0.08544	0.224
Mature Eggplant/Ripe Tomato	0.13973	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04355	1
1-1-2/M82	1.00549	1
12-2/M82	0.90796	0.727
12-4/M82	0.97677	1
1-3/M82	0.97368	0.501
2-1-1/M82	1.10182	1
2-1/M82	0.92487	1
2-6/M82	0.96413	1
3-2/M82	0.95982	1
4-1-1/M82	1.02987	1
4-1/M82	0.84565	0.737
4-3-2/M82	0.97058	1
4-3/M82	0.89855	1
5-3/M82	0.93436	1
6-2/M82	1.01551	1
6-3/M82	1.05252	1
7-1/M82	1.02803	0.992
7-2/M82	0.93365	0.796
9-3-2/M82	1.01836	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.08547	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.1124	1
IL12-4/WTpooled	1.10159	0.646
IL1-4/WTpooled	0.93337
WT/WTpooled	1.01921	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	0.958

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03209	1
DC3000/delta hrp 6h	0.75721	0.95
DC3000/delta hrp 12h	1.08975	1
DC3000/delta hrp 24h	1.02913	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01585	1
DC3000 delta B/DC3000 delta AB	1.01845	0.665

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	1.0112	1
Var 0h	1.46228	0.936
Var 12h I row2-row1	1.02963	0.795
Var 12h NI row2-row1	1.04501	1
Var 36h I row2-row1	0.83147	0.805
Var 36h NI row2-row1	0.97623	0.791
Var 60h I row2-row1	1.23247	0.562
Var 60h NI row2-row1	1.1593	1
Time course 0hI-0hNI	1.11627	0.764
Time course 12hI-12hNI	1.02703	0.82
Time course 36hI-36hNI	0.9655	0.418
Time course 60hI-60hNI	0.93871	0.319

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)	0.91896	0.391
transgenic ySAMdc/azygous control (breaker)	0.8251	0.173
transgenic ySAMdc/azygous control (red)	0.97114	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00344	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.60307	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.54887	1
Manapal/WT (break)	0.71591	1
Manapal/WT (red)	1.08048	0.413