Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.10.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7445	0.2
27DAP/17DAP	1.20002	0.813
39DAP/27DAP	0.87872	0.564
41DAP/39DAP	0.95327	0.789
42DAP/41DAP	1.2499	0.719
43DAP/42DAP	0.92515	0.854
47DAP/43DAP	1.15872	0.668
52DAP/47DAP	1.19834	0.729
57DAP/52DAP	0.81625	0.836

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99092	0.679
17DAP/reference	1.13556	0.071
27DAP/reference	1.10992	0.365
39DAP/reference	1.09526	0.445
41DAP/reference	0.92651	0.341
42DAP/reference	0.88243	0.043
43DAP/reference	0.95966	0.316
47DAP/reference	1.03555	0.575
52DAP/reference	0.99197	0.654
57DAP/reference	1.07033	0.582

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0915	0.749
27DAP/17DAP	1.1393	0.831
39DAP/27DAP	0.94315	0.721
41DAP/39DAP	0.9553	0.885
42DAP/41DAP	0.88819	0.269
43DAP/42DAP	1.00406	0.96
47DAP/43DAP	0.81128	0.476
52DAP/47DAP	0.96216	0.814
57DAP/52DAP	1.03089	0.899
57DAP/7DAP	2.03042

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99686	0.682
17DAP/reference	1.0259	1
27DAP/reference	1.01124	1
39DAP/reference	0.91638	0.126
41DAP/reference	1.0774	0.46
42DAP/reference	0.79301	0.095
43DAP/reference	0.86508	0.079
47DAP/reference	0.93794	0.504
52DAP/reference	0.86032	0.09
57DAP/reference	0.89584	0.083

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.50703	0.164
17DAP/reference	0.98973	0.728
27DAP/reference	1.09584	0.352
39DAP/reference	0.9386	0.265
41DAP/reference	0.99208	0.57
42DAP/reference	0.96307	0.482
43DAP/reference	1.18169	0.159
47DAP/reference	1.07628	0.639
52DAP/reference	1.10708	0.702
57DAP/reference	1.15303	0.567

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83112	0.021
17DAP/reference	0.99291	0.778
27DAP/reference	1.02464	1
39DAP/reference	0.99861	0.755
41DAP/reference	0.97045	0.512
42DAP/reference	0.93851	0.287
43DAP/reference	0.98331	0.639
47DAP/reference	1.0165	1
52DAP/reference	0.83491	0.216
57DAP/reference	0.98805	0.661

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.24227	0.966
26DAP/20DAP	0.83995	1
34DAP/26DAP	1.02969	1
51DAP/34DAP	1.02614	0.978
52DAP/51DAP	0.70654	1
53DAP/52DAP	1.29615	0.108
55DAP/53DAP	0.98242	0.894
57DAP/55DAP	1.37944	0.666
62DAP/57DAP	0.83303	0.28
68DAP/62DAP	0.97941	0.834
68DAP/14DAP	1.33552	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77521	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71585	0.213
Mature Green Tomato/Ripe Tomato	1.141	0.632
Immature Eggplant/Mature Eggplant	0.88583	0.72
Ripe Pepper/Ripe Tomato	2.53698	1
Mature Eggplant/Ripe Tomato	2.31404	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92531
1-1-2/M82	1.16024
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.10191	0.572
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.03076
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.04111	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.8652	1
IL12-4/WTpooled	0.85021	0.566
IL1-4/WTpooled	0.99522	1
WT/WTpooled	1.01223	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	0.95602	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.16762	0.921
DC3000/delta hrp 6h	0.98258	0.95
DC3000/delta hrp 12h	0.9152	1
DC3000/delta hrp 24h	1.10648	0.411

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.74524	0.483

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98055	1
Exp 36h	1.12043	1
Exp 60h	1.14849	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.08204	1
Var 0h	0.98802	1
Var 12h I row2-row1	0.9621	0.705
Var 12h NI row2-row1	1.07543	0.34
Var 36h I row2-row1	1.14366	0.309
Var 36h NI row2-row1	2.55368	1
Var 60h I row2-row1	0.72884	0.306
Var 60h NI row2-row1	1.03263	1
Time course 0hI-0hNI	0.97663	0.911
Time course 12hI-12hNI	0.98849	0.95
Time course 36hI-36hNI	1.1168	0.114
Time course 60hI-60hNI	1.35666	0.012

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)	0.95288	0.391
transgenic ySAMdc/azygous control (breaker)	1.0242	1
transgenic ySAMdc/azygous control (red)	1.09115	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.16321	0.063

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77712	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11729	0.307
Manapal/WT (break)	1.08156	1
Manapal/WT (red)	0.7826	0.188