Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.5.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01353	0.811
27DAP/17DAP	1.14512	0.845
39DAP/27DAP	1.0217	0.876
41DAP/39DAP	1.16903	0.753
42DAP/41DAP	0.91102	1
43DAP/42DAP	1.02546	1
47DAP/43DAP	1.30299	0.394
52DAP/47DAP	1.07007	0.875
57DAP/52DAP	0.8534	0.803

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15496	0.059
17DAP/reference	1.07691	0.172
27DAP/reference	1.06905	0.52
39DAP/reference	1.19587	0.136
41DAP/reference	1.16995	0.133
42DAP/reference	1.10952	0.043
43DAP/reference	0.99999	1
47DAP/reference	1.05915	0.558
52DAP/reference	1.13348	0.072
57DAP/reference	1.02618	0.762

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8748	0.299
27DAP/17DAP	0.90223	0.508
39DAP/27DAP	0.99122	0.984
41DAP/39DAP	1.07213	0.781
42DAP/41DAP	0.90406	0.356
43DAP/42DAP	1.10386	0.273
47DAP/43DAP	1.07297	0.901
52DAP/47DAP	1.06827	0.862
57DAP/52DAP	0.82112	0.328
57DAP/7DAP	1.0212	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00332	1
17DAP/reference	0.92117	0.019
27DAP/reference	0.92463	0.01
39DAP/reference	0.95143	0.049
41DAP/reference	0.97334	0.146
42DAP/reference	0.94506	0.248
43DAP/reference	0.905	0.017
47DAP/reference	0.8903	0.293
52DAP/reference	0.97733	0.398
57DAP/reference	0.92443	0.069

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3128	0.164
17DAP/reference	1.32094	0.021
27DAP/reference	1.28641	0.029
39DAP/reference	1.14051	0.175
41DAP/reference	1.07957	0.766
42DAP/reference	1.24615	0.274
43DAP/reference	1.44443	0.046
47DAP/reference	1.02833	0.841
52DAP/reference	1.09733	0.596
57DAP/reference	1.50709	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99493	0.699
17DAP/reference	1.12299	0.511
27DAP/reference	1.02926	1
39DAP/reference	0.95921	0.393
41DAP/reference	1.15807	0.57
42DAP/reference	1.14377	0.521
43DAP/reference	1.03653	0.867
47DAP/reference	1.08403	0.501
52DAP/reference	0.95447	0.663
57DAP/reference	1.13155	0.255

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.76982	1
26DAP/20DAP	0.82814	1
34DAP/26DAP	1.22703	0.819
51DAP/34DAP	0.53808
52DAP/51DAP	0.75199	0.151
53DAP/52DAP	0.69305	0.093
55DAP/53DAP	1.28211	0.064
57DAP/55DAP	1.14758	0.728
62DAP/57DAP	1.18779
68DAP/62DAP	0.66794	0.345
68DAP/14DAP	1.31108	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.7295	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.3906
Mature Green Tomato/Ripe Tomato	1.03003	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.47299
Mature Eggplant/Ripe Tomato	1.11393	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89072	0.934
1-1-2/M82	1.17869	1
12-2/M82	0.96355	1
12-4/M82	0.89649	0.619
1-3/M82	1.52621	0.248
2-1-1/M82	1.06847	0.764
2-1/M82	0.98756	1
2-6/M82	0.93252	1
3-2/M82	0.89064
4-1-1/M82	0.65741
4-1/M82	N/A	N/A
4-3-2/M82	1.18969	0.262
4-3/M82	1.22871	1
5-3/M82	0.96975	1
6-2/M82	1.05513
6-3/M82	1.04698	1
7-1/M82	1.14486	1
7-2/M82	0.995	1
9-3-2/M82	0.90539	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87213	0.321
IL2-6/WTpooled	0.70174	0.473
IL7-5/WTpooled	0.63628	1
IL7-3/WTpooled	0.83737	0.418
IL12-4/WTpooled	0.79121	0.71
IL1-4/WTpooled	0.8617	0.415
WT/WTpooled	0.91189	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	1.18985	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98163	1
DC3000/delta hrp 6h	0.66786	0.95
DC3000/delta hrp 12h	1.04319	1
DC3000/delta hrp 24h	0.91659	0.473

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.67869	0.37
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	1.02048	1
Var 0h	0.57984	0.594
Var 12h I row2-row1	1.02229	0.736
Var 12h NI row2-row1	0.8457	0.494
Var 36h I row2-row1	0.89821	0.805
Var 36h NI row2-row1	1.25321	1
Var 60h I row2-row1	1.21382	0.562
Var 60h NI row2-row1	1.11436	0.904
Time course 0hI-0hNI	1.00646	1
Time course 12hI-12hNI	0.95931	0.668
Time course 36hI-36hNI	0.98769	0.569
Time course 60hI-60hNI	1.31839	0.008

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)	0.9797	0.246
transgenic ySAMdc/azygous control (breaker)	0.90245	0.251
transgenic ySAMdc/azygous control (red)	1.00837	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94854	0.136

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73019	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76123	1
Manapal/WT (break)	0.85412	1
Manapal/WT (red)	0.91384	0.607