Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.8.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11258	0.709
27DAP/17DAP	1.17785	0.825
39DAP/27DAP	1.29093	0.732
41DAP/39DAP	1.35922	0.553
42DAP/41DAP	1.30812	0.691
43DAP/42DAP	1.0683	1
47DAP/43DAP	1.20388	0.469
52DAP/47DAP	0.77941	0.445
57DAP/52DAP	0.76576	0.67

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96397	0.188
17DAP/reference	1.07733	0.154
27DAP/reference	0.94772	0.369
39DAP/reference	0.97399	0.691
41DAP/reference	1.04968	0.759
42DAP/reference	0.9727	0.326
43DAP/reference	1.17208	0.025
47DAP/reference	0.97205	0.322
52DAP/reference	0.92365	0.21
57DAP/reference	0.90122	0.124

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93687	0.442
27DAP/17DAP	0.92234	0.782
39DAP/27DAP	1.33045	0.19
41DAP/39DAP	1.03622	0.914
42DAP/41DAP	0.89921	0.282
43DAP/42DAP	1.04576	0.699
47DAP/43DAP	1.14405	0.827
52DAP/47DAP	1.12794	0.718
57DAP/52DAP	0.96079	0.68
57DAP/7DAP	0.857	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15872	0.481
17DAP/reference	0.89932	0.295
27DAP/reference	1.01636	1
39DAP/reference	1.09698	0.371
41DAP/reference	1.1809	0.593
42DAP/reference	0.97132	0.506
43DAP/reference	0.97576	0.527
47DAP/reference	0.95502	0.671
52DAP/reference	1.30535	0.086
57DAP/reference	1.01457	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11051	0.559
17DAP/reference	0.95385	0.326
27DAP/reference	0.9912	0.598
39DAP/reference	0.91035	0.129
41DAP/reference	0.94534	0.291
42DAP/reference	0.97877	0.433
43DAP/reference	1.0985	0.728
47DAP/reference	1.06486	0.098
52DAP/reference	1.0246	0.747
57DAP/reference	1.24783	0.094

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01971	0.882
17DAP/reference	0.97868	0.751
27DAP/reference	0.9771	0.727
39DAP/reference	0.89071	0.393
41DAP/reference	0.98512	0.682
42DAP/reference	0.96914	0.671
43DAP/reference	0.70313	0.03
47DAP/reference	1.17476	0.019
52DAP/reference	0.93348	0.327
57DAP/reference	0.76609	0.063

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0135	1
26DAP/20DAP	0.90327	1
34DAP/26DAP	0.87305	0.322
51DAP/34DAP	0.72371	0.093
52DAP/51DAP	1.17578	0.534
53DAP/52DAP	1.03781	1
55DAP/53DAP	1.37486	0.656
57DAP/55DAP	0.95949	0.831
62DAP/57DAP	1.72191	0.069
68DAP/62DAP	0.89438	0.429
68DAP/14DAP	1.29707	0.739

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.2525	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99394	0.826
Mature Green Tomato/Ripe Tomato	0.54117	0.024
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.02246	1
Mature Eggplant/Ripe Tomato	0.14905	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06828	0.877
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.02871	1
1-3/M82	N/A	N/A
2-1-1/M82	1.38805
2-1/M82	N/A	N/A
2-6/M82	1.07973	0.425
3-2/M82	N/A	N/A
4-1-1/M82	1.00081
4-1/M82	1.35511
4-3-2/M82	1.17632	0.262
4-3/M82	0.84374	0.72
5-3/M82	0.95044	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.8108
7-2/M82	0.9998
9-3-2/M82	1.09155

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.67933
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.06859	1
IL12-4/WTpooled	0.87597	0.71
IL1-4/WTpooled	1.32185
WT/WTpooled	1.12191	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	1.32085	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06773	0.921
DC3000/delta hrp 6h	1.14252	1
DC3000/delta hrp 12h	1.16352	1
DC3000/delta hrp 24h	1.10329	0.336

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.53738	0.094
DC3000 delta B/DC3000 delta AB	2.32729	0.034

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	0.87045	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97489	1
Var 0h	1.09969	0.98
Var 12h I row2-row1	0.68764	0.467
Var 12h NI row2-row1	1.69078	0.34
Var 36h I row2-row1	1.2197	1
Var 36h NI row2-row1	0.55799	0.522
Var 60h I row2-row1	0.75055	0.582
Var 60h NI row2-row1	0.69548	0.292
Time course 0hI-0hNI	1.27576	0.413
Time course 12hI-12hNI	1.12069	0.756
Time course 36hI-36hNI	3.39559	0.004
Time course 60hI-60hNI	9.3334	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)	1.03226	0.699
transgenic ySAMdc/azygous control (breaker)	0.53191	0.142
transgenic ySAMdc/azygous control (red)	1.06121	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02047	0.317

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93404	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.48615	0.172
Manapal/WT (break)	1.5346	0.381
Manapal/WT (red)	1.0997	1