Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.18.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86824	0.511
27DAP/17DAP	0.87443	0.697
39DAP/27DAP	1.21817	0.516
41DAP/39DAP	1.21035	0.143
42DAP/41DAP	0.99371	1
43DAP/42DAP	0.98788	0.932
47DAP/43DAP	0.89389	0.634
52DAP/47DAP	1.49458	0.249
57DAP/52DAP	0.83975	0.39

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1751	0.081
17DAP/reference	0.95614	0.448
27DAP/reference	0.96281	0.567
39DAP/reference	1.06112	0.453
41DAP/reference	1.01031	1
42DAP/reference	1.17151	0.035
43DAP/reference	0.93528	0.538
47DAP/reference	1.05735	0.627
52DAP/reference	0.93676	0.267
57DAP/reference	1.0383	0.511

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88183	0.388
27DAP/17DAP	0.89892	0.58
39DAP/27DAP	1.16284	0.519
41DAP/39DAP	0.7765	0.077
42DAP/41DAP	0.85704	0.315
43DAP/42DAP	1.27814	0.122
47DAP/43DAP	1.01287	0.99
52DAP/47DAP	0.85809	0.296
57DAP/52DAP	1.11176	0.858
57DAP/7DAP	1.40727	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88154	0.157
17DAP/reference	0.92283	0.094
27DAP/reference	0.96859	0.325
39DAP/reference	0.84811	0.043
41DAP/reference	0.76606	0.032
42DAP/reference	0.93606	0.304
43DAP/reference	0.76424	0.014
47DAP/reference	0.93062	0.222
52DAP/reference	0.80344	0.018
57DAP/reference	0.70895	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01328	0.97
17DAP/reference	1.11818	0.415
27DAP/reference	1.32829	0.095
39DAP/reference	1.02695	1
41DAP/reference	0.97387	0.441
42DAP/reference	1.40049	0.013
43DAP/reference	1.37305	0.101
47DAP/reference	1.15015	0.018
52DAP/reference	1.1364	0.168
57DAP/reference	1.14394	0.252

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96355	0.391
17DAP/reference	1.06533	0.746
27DAP/reference	0.96242	0.442
39DAP/reference	0.8161	0.011
41DAP/reference	1.05032	0.826
42DAP/reference	0.93895	0.361
43DAP/reference	1.0077	0.66
47DAP/reference	1.12787	0.179
52DAP/reference	0.89162	0.303
57DAP/reference	1.13274	0.549

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.83901	0.65
26DAP/20DAP	0.9884	1
34DAP/26DAP	1.08537	1
51DAP/34DAP	0.81255	0.246
52DAP/51DAP	1.0612	0.842
53DAP/52DAP	0.92924	0.772
55DAP/53DAP	0.96582	0.761
57DAP/55DAP	1.29396	0.793
62DAP/57DAP	0.88261	0.28
68DAP/62DAP	0.97504	0.834
68DAP/14DAP	0.81224	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.20759	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.7356	0.221
Mature Green Tomato/Ripe Tomato	0.6175	0.04
Immature Eggplant/Mature Eggplant	1.00569	1
Ripe Pepper/Ripe Tomato	0.81831	1
Mature Eggplant/Ripe Tomato	0.63353	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.26528	0.551
1-1-2/M82	1.19705	1
12-2/M82	1.33087	1
12-4/M82	1.20272	1
1-3/M82	0.82896	0.501
2-1-1/M82	0.76019
2-1/M82	N/A	N/A
2-6/M82	0.76597	1
3-2/M82	1.07201
4-1-1/M82	N/A	N/A
4-1/M82	1.08707	1
4-3-2/M82	0.76485
4-3/M82	0.98463	1
5-3/M82	1.1131	1
6-2/M82	1.20049	1
6-3/M82	1.04254	1
7-1/M82	1.07252	1
7-2/M82	0.80503	0.434
9-3-2/M82	0.85695	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91585	0.321
IL2-6/WTpooled	1.53195	0.441
IL7-5/WTpooled	1.01612	1
IL7-3/WTpooled	1.35007	1
IL12-4/WTpooled	0.88668	0.566
IL1-4/WTpooled	1.00905	1
WT/WTpooled	1.02799	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	1.1699	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93003	1
DC3000/delta hrp 6h	1.02484	1
DC3000/delta hrp 12h	1.0707	1
DC3000/delta hrp 24h	1.16483	0.099

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	0.41442

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8871	1
Exp 36h	0.77885	0.471
Exp 60h	0.74776	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	1.16033
Var 0h	3.46281	0.782
Var 12h I row2-row1	1.03006	1
Var 12h NI row2-row1	1.18345	1
Var 36h I row2-row1	0.81179	0.575
Var 36h NI row2-row1	1.03851	1
Var 60h I row2-row1	1.12051	0.562
Var 60h NI row2-row1	1.06053	0.904
Time course 0hI-0hNI	1.09959	0.799
Time course 12hI-12hNI	1.04107	0.786
Time course 36hI-36hNI	1.11688	0.089
Time course 60hI-60hNI	1.79328	0.022

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)	1.07458	0.612
transgenic ySAMdc/azygous control (breaker)	0.71555	0.129
transgenic ySAMdc/azygous control (red)	0.92431	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97862	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25104	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.21953	0.105
Manapal/WT (break)	1.11825	0.14
Manapal/WT (red)	1.10992	1