Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.4.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9111	0.586
27DAP/17DAP	0.88055	0.725
39DAP/27DAP	0.91224	0.583
41DAP/39DAP	1.61036	0.326
42DAP/41DAP	1.14653	1
43DAP/42DAP	0.97962	0.91
47DAP/43DAP	0.96809	0.71
52DAP/47DAP	1.72594	0.16
57DAP/52DAP	0.88627	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92831	0.211
17DAP/reference	1.01363	0.717
27DAP/reference	0.84779	0.032
39DAP/reference	1.02194	0.679
41DAP/reference	1.00452	1
42DAP/reference	0.99392	0.531
43DAP/reference	1.04081	0.705
47DAP/reference	1.01356	0.84
52DAP/reference	0.97678	0.515
57DAP/reference	1.0443	0.392

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00128	0.847
27DAP/17DAP	1.01352	1
39DAP/27DAP	1.09931	0.519
41DAP/39DAP	0.92263	0.781
42DAP/41DAP	1.11374	0.694
43DAP/42DAP	1.04377	0.699
47DAP/43DAP	0.96264	0.833
52DAP/47DAP	1.0319	0.907
57DAP/52DAP	1.03286	0.941
57DAP/7DAP	0.78536	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85055	0.146
17DAP/reference	0.89172	0.124
27DAP/reference	0.93383	0.283
39DAP/reference	0.72053	0.011
41DAP/reference	0.80209	0.029
42DAP/reference	0.77541	0.019
43DAP/reference	0.85458	0.11
47DAP/reference	0.8955	0.293
52DAP/reference	0.73151	0.019
57DAP/reference	0.80312	0.05

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11391	0.367
17DAP/reference	1.06492	0.338
27DAP/reference	0.96969	0.554
39DAP/reference	0.88868	0.136
41DAP/reference	0.87913	0.085
42DAP/reference	0.86542	0.046
43DAP/reference	1.08567	0.352
47DAP/reference	0.98479	0.5
52DAP/reference	0.97197	0.433
57DAP/reference	1.06466	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78722	0.038
17DAP/reference	0.92575	0.374
27DAP/reference	0.9606	0.416
39DAP/reference	0.80209	0.015
41DAP/reference	0.79665	0.077
42DAP/reference	0.83542	0.087
43DAP/reference	0.82818	0.116
47DAP/reference	0.93809	0.215
52DAP/reference	0.77225	0.186
57DAP/reference	0.70186	0.03

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93145	0.672
26DAP/20DAP	1.06041	0.834
34DAP/26DAP	0.94793	0.893
51DAP/34DAP	1.35096	0.084
52DAP/51DAP	1.08576	0.431
53DAP/52DAP	0.85831	0.307
55DAP/53DAP	0.92601	0.619
57DAP/55DAP	1.14328	0.348
62DAP/57DAP	1.23746	0.8
68DAP/62DAP	1.01063	0.939
68DAP/14DAP	1.11943	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.753	0.097

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.82405	0.301
Mature Green Tomato/Ripe Tomato	0.78108	0.317
Immature Eggplant/Mature Eggplant	1.55933	0.069
Ripe Pepper/Ripe Tomato	2.27253	0.256
Mature Eggplant/Ripe Tomato	1.25845	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9791	0.944
1-1-2/M82	0.96885	1
12-2/M82	1.15689	1
12-4/M82	0.95648	1
1-3/M82	0.86023	0.441
2-1-1/M82	1.44756
2-1/M82	1.27431	1
2-6/M82	1.12686	0.594
3-2/M82	N/A	N/A
4-1-1/M82	1.03341	1
4-1/M82	0.9506	1
4-3-2/M82	0.92142	1
4-3/M82	0.91975	1
5-3/M82	1.02064	1
6-2/M82	0.91255	1
6-3/M82	0.9941	1
7-1/M82	0.97329	1
7-2/M82	1.09424	1
9-3-2/M82	0.89178	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.69505
IL2-6/WTpooled	1.16536	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.10535	1
IL12-4/WTpooled	0.92568	1
IL1-4/WTpooled	0.93536	1
WT/WTpooled	1.04194	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	1.02166	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9553	1
DC3000/delta hrp 6h	1.04953	0.95
DC3000/delta hrp 12h	1.3502	1
DC3000/delta hrp 24h	0.9857	0.957

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	1.13075	0.748

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9227	0.228
Exp 36h	0.92507	0.256
Exp 60h	1.09274	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9877	1
Var 0h	2.52542	0.98
Var 12h I row2-row1	0.99432	1
Var 12h NI row2-row1	0.98443	1
Var 36h I row2-row1	1.43765	0.41
Var 36h NI row2-row1	1.17813	1
Var 60h I row2-row1	0.79971	0.293
Var 60h NI row2-row1	0.94018	0.516
Time course 0hI-0hNI	1.12739	0.297
Time course 12hI-12hNI	1.56091	0.009
Time course 36hI-36hNI	2.53316	0.004
Time course 60hI-60hNI	5.57549	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)	1.05175	0.431
transgenic ySAMdc/azygous control (breaker)	1.23296	0.248
transgenic ySAMdc/azygous control (red)	1.09797	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01729	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04364	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98055	1
Manapal/WT (break)	0.90872	1
Manapal/WT (red)	0.91755	0.216