Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.18.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12836	0.927
27DAP/17DAP	1.38294	0.73
39DAP/27DAP	0.66568	0.425
41DAP/39DAP	1.87925	0.367
42DAP/41DAP	1.05806	1
43DAP/42DAP	1.117	1
47DAP/43DAP	1.09177	0.965
52DAP/47DAP	1.31416	0.691
57DAP/52DAP	0.98691	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9711	0.526
17DAP/reference	1.03364	0.476
27DAP/reference	1.10693	0.106
39DAP/reference	1.08413	0.111
41DAP/reference	1.09996	0.221
42DAP/reference	1.06839	0.084
43DAP/reference	0.93896	0.155
47DAP/reference	1.13113	0.015
52DAP/reference	0.87687	0.099
57DAP/reference	0.9536	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0349	0.923
27DAP/17DAP	1.22621	0.264
39DAP/27DAP	1.06093	0.728
41DAP/39DAP	0.96277	0.923
42DAP/41DAP	1.09816	0.508
43DAP/42DAP	1.26877	0.017
47DAP/43DAP	1.02389	0.88
52DAP/47DAP	0.94717	0.801
57DAP/52DAP	1.36382	0.13
57DAP/7DAP	1.32329	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01829	0.758
17DAP/reference	1.45744	0.014
27DAP/reference	1.44223	0.026
39DAP/reference	1.70688	0.005
41DAP/reference	1.49195	0.021
42DAP/reference	1.80104	0.013
43DAP/reference	1.5618	0.009
47DAP/reference	1.27174	0.165
52DAP/reference	1.6829	0.011
57DAP/reference	1.58722	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0006	0.993
17DAP/reference	1.04549	0.357
27DAP/reference	0.88703	0.188
39DAP/reference	0.89808	0.168
41DAP/reference	0.88789	0.103
42DAP/reference	0.92907	0.081
43DAP/reference	0.96022	0.494
47DAP/reference	0.93942	0.137
52DAP/reference	0.95883	0.171
57DAP/reference	0.99461	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32514	0.051
17DAP/reference	1.0772	0.746
27DAP/reference	1.73789	0.015
39DAP/reference	1.55678	0.016
41DAP/reference	1.41501	0.03
42DAP/reference	1.02533	1
43DAP/reference	0.98839	0.614
47DAP/reference	1.0115	1
52DAP/reference	1.38851	0.113
57DAP/reference	0.82757	0.082

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12916	0.966
26DAP/20DAP	1.90565	0.156
34DAP/26DAP	0.95662	0.936
51DAP/34DAP	1.36491	0.281
52DAP/51DAP	0.79781	1
53DAP/52DAP	1.53928	0.072
55DAP/53DAP	0.9054	0.293
57DAP/55DAP	1.06626	0.975
62DAP/57DAP	0.76914	0.162
68DAP/62DAP	0.95454	0.787
68DAP/14DAP	1.17948	0.311

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85603	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.01596	1
Mature Green Tomato/Ripe Tomato	0.87282	0.377
Immature Eggplant/Mature Eggplant	0.97015	0.912
Ripe Pepper/Ripe Tomato	0.51618	0.224
Mature Eggplant/Ripe Tomato	0.63134	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.20092	1
1-1-2/M82	1.09431	1
12-2/M82	1.01978	1
12-4/M82	0.74649	0.358
1-3/M82	1.0826	0.255
2-1-1/M82	0.97871	1
2-1/M82	1.52699	1
2-6/M82	0.76725	0.125
3-2/M82	1.29858	0.967
4-1-1/M82	1.00921
4-1/M82	0.92105
4-3-2/M82	0.75243
4-3/M82	1.17877	1
5-3/M82	0.95755	1
6-2/M82	1.15462	1
6-3/M82	0.95955	1
7-1/M82	0.78721
7-2/M82	0.96796	1
9-3-2/M82	0.96185

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.68311
WT/WTpooled	N/A	N/A

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	1.06056	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0554	0.921
DC3000/delta hrp 6h	0.77224	0.715
DC3000/delta hrp 12h	1.03533	1
DC3000/delta hrp 24h	1.17302	0.182

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0257	1
DC3000 delta B/DC3000 delta AB	1.01806	0.771

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00229	1
Exp 36h	1.28593	0.693
Exp 60h	1.27096	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04704	1
Var 0h	1.17534	0.936
Var 12h I row2-row1	1.19957	0.198
Var 12h NI row2-row1	1.13617	0.281
Var 36h I row2-row1	1.03057	1
Var 36h NI row2-row1	1.4248	0.276
Var 60h I row2-row1	0.81105	0.306
Var 60h NI row2-row1	1.14064	0.904
Time course 0hI-0hNI	0.93483	0.485
Time course 12hI-12hNI	1.10241	0.593
Time course 36hI-36hNI	0.91392	0.241
Time course 60hI-60hNI	0.76454	0.026

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)	1.11014	0.278
transgenic ySAMdc/azygous control (breaker)	0.68034	0.142
transgenic ySAMdc/azygous control (red)	0.97534	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13955	0.08

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92243	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81705	1
Manapal/WT (break)	0.7781	0.333
Manapal/WT (red)	0.64622	0.181