Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.20.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12052	0.523
27DAP/17DAP	1.11263	0.845
39DAP/27DAP	0.92533	0.474
41DAP/39DAP	1.12169	0.483
42DAP/41DAP	0.9115	0.774
43DAP/42DAP	1.10157	0.861
47DAP/43DAP	1.08681	0.809
52DAP/47DAP	0.90549	0.702
57DAP/52DAP	1.04338	0.958

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13675	0.154
17DAP/reference	1.02188	0.764
27DAP/reference	0.98402	0.61
39DAP/reference	0.96669
41DAP/reference	1.3084	0.073
42DAP/reference	1.01713	1
43DAP/reference	0.73821	0.017
47DAP/reference	0.91568	0.366
52DAP/reference	0.99636	0.749
57DAP/reference	0.60395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9405	0.56
27DAP/17DAP	1.01631	0.968
39DAP/27DAP	1.00113	1
41DAP/39DAP	1.04911	0.763
42DAP/41DAP	1.01424	0.936
43DAP/42DAP	1.02492	0.478
47DAP/43DAP	1.03135	0.772
52DAP/47DAP	0.93523	0.603
57DAP/52DAP	0.87831	0.221
57DAP/7DAP	0.86468	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74274	0.069
17DAP/reference	0.5443	0.011
27DAP/reference	0.59966	0.01
39DAP/reference	0.62273	0.011
41DAP/reference	0.93377	0.341
42DAP/reference	0.70733	0.012
43DAP/reference	0.68451	0.011
47DAP/reference	0.89207	0.222
52DAP/reference	1.57543	0.01
57DAP/reference	1.12354	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98291	0.756
17DAP/reference	0.99682	0.786
27DAP/reference	1.12245	0.726
39DAP/reference	0.9893	0.526
41DAP/reference	0.85003	0.005
42DAP/reference	N/A	N/A
43DAP/reference	0.79677	0.175
47DAP/reference	N/A	N/A
52DAP/reference	0.96354	0.111
57DAP/reference	1.00659	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91947	0.23
17DAP/reference	0.89674	0.407
27DAP/reference	0.70061	0.038
39DAP/reference	0.80768	0.058
41DAP/reference	0.74525	0.035
42DAP/reference	0.66413	0.016
43DAP/reference	0.68379	0.018
47DAP/reference	0.99739	0.687
52DAP/reference	0.75156	0.172
57DAP/reference	1.00393	0.682

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94566	0.44
26DAP/20DAP	1.02326	1
34DAP/26DAP	0.9958	1
51DAP/34DAP	1.04666	0.597
52DAP/51DAP	1.00491	1
53DAP/52DAP	1.08487	0.643
55DAP/53DAP	1.03744	0.737
57DAP/55DAP	1.5771	0.745
62DAP/57DAP	0.87295	0.466
68DAP/62DAP	0.95419	0.81
68DAP/14DAP	1.15148	0.045

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04732	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.98573	0.783
Mature Green Tomato/Ripe Tomato	1.1294	0.399
Immature Eggplant/Mature Eggplant	1.13646	0.321
Ripe Pepper/Ripe Tomato	1.06933	1
Mature Eggplant/Ripe Tomato	0.82834	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93428	0.944
1-1-2/M82	1.0063	1
12-2/M82	0.9243	0.955
12-4/M82	0.95052	0.619
1-3/M82	1.02933	1
2-1-1/M82	0.89774	0.784
2-1/M82	1.27562	1
2-6/M82	0.892	1
3-2/M82	1.01845	1
4-1-1/M82	0.93386	1
4-1/M82	1.16961
4-3-2/M82	0.93339	1
4-3/M82	0.92502	1
5-3/M82	0.98822	1
6-2/M82	0.9919	1
6-3/M82	1.14951	1
7-1/M82	1.03892	0.598
7-2/M82	0.96212	1
9-3-2/M82	1.07134	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.34064	0.277
IL2-6/WTpooled	0.55752	0.358
IL7-5/WTpooled	1.16245	0.75
IL7-3/WTpooled	1.17479	1
IL12-4/WTpooled	1.29997	0.557
IL1-4/WTpooled	0.97576	1
WT/WTpooled	1.00896	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	1.66241	0.154

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96746	1
DC3000/delta hrp 6h	1.3572	1
DC3000/delta hrp 12h	0.99623	1
DC3000/delta hrp 24h	1.0305	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94551	0.341
DC3000 delta B/DC3000 delta AB	1.0601	0.491

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.29039	0.254
Exp 36h	1.37791	0.693
Exp 60h	1.45295	0.226

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99184	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.02378	0.692
Var 12h NI row2-row1	0.9389	0.82
Var 36h I row2-row1	1.19384	1
Var 36h NI row2-row1	0.97457	0.791
Var 60h I row2-row1	1.02257	1
Var 60h NI row2-row1	1.15655	1
Time course 0hI-0hNI	1.20004	0.852
Time course 12hI-12hNI	1.01619	1
Time course 36hI-36hNI	0.95741	0.403
Time course 60hI-60hNI	1.21639	0.069

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)	0.89265	0.32
transgenic ySAMdc/azygous control (breaker)	1.02308	1
transgenic ySAMdc/azygous control (red)	1.00049	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97773	0.353

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.73728	1
Manapal/WT (break)	0.57219	0.262
Manapal/WT (red)	0.8564	0.181