Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.6.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76381	0.125
27DAP/17DAP	0.65441	0.074
39DAP/27DAP	1.55878	0.109
41DAP/39DAP	0.84779	0.389
42DAP/41DAP	0.87956	1
43DAP/42DAP	0.96104	0.9
47DAP/43DAP	0.69962	0.177
52DAP/47DAP	1.08683	0.989
57DAP/52DAP	1.21929	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92826	0.269
17DAP/reference	1.03112	0.442
27DAP/reference	0.9389	0.208
39DAP/reference	0.99426	0.901
41DAP/reference	0.98713	0.814
42DAP/reference	0.95852	0.188
43DAP/reference	1.0423	0.596
47DAP/reference	0.90536	0.083
52DAP/reference	0.86719	0.067
57DAP/reference	0.81052	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27184	0.138
27DAP/17DAP	1.16786	0.681
39DAP/27DAP	0.91998	0.572
41DAP/39DAP	1.15818	0.79
42DAP/41DAP	1.02278	0.887
43DAP/42DAP	0.82794	0.256
47DAP/43DAP	1.03871	0.941
52DAP/47DAP	0.97624	0.902
57DAP/52DAP	1.25656	0.2
57DAP/7DAP	0.8149

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01621	1
17DAP/reference	1.14624	1
27DAP/reference	0.97603	0.656
39DAP/reference	0.86504	0.064
41DAP/reference	1.08521	0.655
42DAP/reference	0.95477	0.436
43DAP/reference	0.94174	0.292
47DAP/reference	0.95169	0.383
52DAP/reference	1.13259	0.781
57DAP/reference	1.21554	0.438

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01816	0.93
17DAP/reference	1.11866	0.151
27DAP/reference	0.98492	0.598
39DAP/reference	0.80708	0.029
41DAP/reference	0.95986	0.373
42DAP/reference	0.90262	0.061
43DAP/reference	1.08066	0.489
47DAP/reference	0.9602	0.349
52DAP/reference	1.02325	1
57DAP/reference	1.22463	0.172

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88876	0.268
17DAP/reference	1.13917	0.436
27DAP/reference	0.84075	0.026
39DAP/reference	0.98919	0.889
41DAP/reference	1.46449	0.022
42DAP/reference	1.08306	0.907
43DAP/reference	0.95892	0.503
47DAP/reference	1.04171	1
52DAP/reference	1.37518	0.398
57DAP/reference	0.81942	0.149

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96864	1
26DAP/20DAP	2.59189	0.109
34DAP/26DAP	0.86979	0.531
51DAP/34DAP	1.39326	0.064
52DAP/51DAP	0.8512	1
53DAP/52DAP	0.96718	0.835
55DAP/53DAP	0.6537	0.019
57DAP/55DAP	1.23718	0.805
62DAP/57DAP	1.08284
68DAP/62DAP	0.7494	0.101
68DAP/14DAP	0.91619	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.6975	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.22382	0.478
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.21803	1
Mature Eggplant/Ripe Tomato	1.59648	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9134	0.944
1-1-2/M82	1.25834	1
12-2/M82	1.01876	1
12-4/M82	1.15614	1
1-3/M82	1.54653	0.248
2-1-1/M82	0.89001	1
2-1/M82	N/A	N/A
2-6/M82	0.77667	0.501
3-2/M82	N/A	N/A
4-1-1/M82	0.61644
4-1/M82	1.1088	1
4-3-2/M82	1.05421	1
4-3/M82	1.49197	0.268
5-3/M82	1.19563	0.572
6-2/M82	N/A	N/A
6-3/M82	1.0242	1
7-1/M82	N/A	N/A
7-2/M82	1.1069
9-3-2/M82	0.99116	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.0077	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.17918	1
IL12-4/WTpooled	0.83879	0.52
IL1-4/WTpooled	1.01517
WT/WTpooled	1.10015	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	1.17545	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0872	0.914
DC3000/delta hrp 6h	0.91227	0.95
DC3000/delta hrp 12h	1.23495	1
DC3000/delta hrp 24h	1.11413	0.151

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20318	0.29
DC3000 delta B/DC3000 delta AB	1.35024	0.139

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94102	1
Exp 36h	0.88528	0.699
Exp 60h	0.91605	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99181	1
Var 0h	1.08528	0.98
Var 12h I row2-row1	1.37103	0.406
Var 12h NI row2-row1	1.25122	0.34
Var 36h I row2-row1	1.14655	0.601
Var 36h NI row2-row1	1.03594	1
Var 60h I row2-row1	0.74843	0.285
Var 60h NI row2-row1	0.93035	0.866
Time course 0hI-0hNI	0.90546	0.411
Time course 12hI-12hNI	1.06596	0.684
Time course 36hI-36hNI	1.44905	0.006
Time course 60hI-60hNI	2.12578	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)	0.91692	0.391
transgenic ySAMdc/azygous control (breaker)	1.21195	0.248
transgenic ySAMdc/azygous control (red)	1.03607	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01203	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97252	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91014	1
Manapal/WT (break)	1.11009	1
Manapal/WT (red)	1.1245	0.413