Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.15.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86579	0.436
27DAP/17DAP	0.8655	0.679
39DAP/27DAP	0.76238	0.315
41DAP/39DAP	1.4018	0.584
42DAP/41DAP	0.81754	0.774
43DAP/42DAP	0.88508	0.709
47DAP/43DAP	0.94644	0.746
52DAP/47DAP	0.99824	0.793
57DAP/52DAP	0.83212	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94022	0.162
17DAP/reference	0.96545	0.393
27DAP/reference	0.97885	0.484
39DAP/reference	0.97202	0.554
41DAP/reference	0.98719	0.814
42DAP/reference	0.98383	0.305
43DAP/reference	0.96974	0.429
47DAP/reference	0.99154	0.535
52DAP/reference	1.01597	0.912
57DAP/reference	0.99228	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8653	0.388
27DAP/17DAP	0.92745	0.782
39DAP/27DAP	0.92506	0.628
41DAP/39DAP	1.06009	0.921
42DAP/41DAP	0.93943	0.545
43DAP/42DAP	0.94351	0.641
47DAP/43DAP	1.03746	0.957
52DAP/47DAP	1.02412	0.939
57DAP/52DAP	0.8728	0.348
57DAP/7DAP	0.91855	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87601	0.115
17DAP/reference	0.8276	0.02
27DAP/reference	0.8425	0.012
39DAP/reference	0.93298	0.083
41DAP/reference	0.91015	0.076
42DAP/reference	0.79662	0.012
43DAP/reference	0.762	0.014
47DAP/reference	0.86059	0.128
52DAP/reference	0.82199	0.049
57DAP/reference	0.80841	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93736	0.412
17DAP/reference	0.93648	0.033
27DAP/reference	0.9042	0.09
39DAP/reference	0.92917	0.257
41DAP/reference	0.89348	0.024
42DAP/reference	0.98563	0.594
43DAP/reference	1.06641	0.611
47DAP/reference	1.02383	0.556
52DAP/reference	1.01703	0.702
57DAP/reference	0.99845	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91133	0.119
17DAP/reference	0.94517	0.313
27DAP/reference	0.79787	0.048
39DAP/reference	0.78313	0.025
41DAP/reference	0.87208	0.07
42DAP/reference	0.84675	0.071
43DAP/reference	0.84293	0.02
47DAP/reference	0.93041	0.125
52DAP/reference	0.81018	0.174
57DAP/reference	0.94498	0.424

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08212	0.966
26DAP/20DAP	0.86946	0.317
34DAP/26DAP	1.20276	0.304
51DAP/34DAP	1.01938	0.978
52DAP/51DAP	1.12969	0.522
53DAP/52DAP	0.96837	0.844
55DAP/53DAP	0.89271	0.313
57DAP/55DAP	1.14299	0.114
62DAP/57DAP	0.90366	0.162
68DAP/62DAP	0.98541	0.885
68DAP/14DAP	1.1141	0.558

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82408	0.076

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.23792	0.331
Immature Eggplant/Mature Eggplant	1.14018	0.198
Ripe Pepper/Ripe Tomato	2.0078	1
Mature Eggplant/Ripe Tomato	11.2255	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06969	0.877
1-1-2/M82	0.86045
12-2/M82	1.26112	1
12-4/M82	0.76627	1
1-3/M82	0.97153	1
2-1-1/M82	0.93471
2-1/M82	N/A	N/A
2-6/M82	1.00482	1
3-2/M82	N/A	N/A
4-1-1/M82	1.05375	1
4-1/M82	1.10924	1
4-3-2/M82	0.88393
4-3/M82	0.95347	1
5-3/M82	0.93094	1
6-2/M82	0.7653
6-3/M82	0.98063	1
7-1/M82	N/A	N/A
7-2/M82	0.91444	0.881
9-3-2/M82	0.67301	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.02455	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.30228	0.362
IL12-4/WTpooled	1.21802	0.624
IL1-4/WTpooled	1.02706	1
WT/WTpooled	1.03088	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	0.8763	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03767	0.914
DC3000/delta hrp 6h	1.10352	1
DC3000/delta hrp 12h	0.97165	1
DC3000/delta hrp 24h	0.99122	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.15037	0.045
DC3000 delta B/DC3000 delta AB	1.33019	0.163

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85779	0.24
Exp 36h	0.90437	0.943
Exp 60h	0.75836	0.386

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	0.83113	0.291
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.28963	0.384
transgenic ySAMdc/azygous control (breaker)	1.10058	1
transgenic ySAMdc/azygous control (red)	1.10887	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99045	0.486

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78294	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.23042	0.222