Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.2.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08236	0.786
27DAP/17DAP	1.18428	0.793
39DAP/27DAP	0.9678	0.7
41DAP/39DAP	1.06685	0.742
42DAP/41DAP	0.80166	0.397
43DAP/42DAP	0.95396	0.877
47DAP/43DAP	1.07965	0.715
52DAP/47DAP	0.96802	0.898
57DAP/52DAP	1.03056	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96738	0.455
17DAP/reference	0.99347	0.858
27DAP/reference	0.88394	0.187
39DAP/reference	0.96762	0.6
41DAP/reference	1.03389	0.624
42DAP/reference	0.96125	0.169
43DAP/reference	0.98034	0.576
47DAP/reference	0.9507	0.116
52DAP/reference	1.00614	1
57DAP/reference	0.88735	0.065

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14916	0.934
27DAP/17DAP	1.08729	0.811
39DAP/27DAP	0.96959	0.768
41DAP/39DAP	1.11548	0.774
42DAP/41DAP	0.99049	0.864
43DAP/42DAP	0.97732	0.831
47DAP/43DAP	1.02938	0.892
52DAP/47DAP	0.82204	0.226
57DAP/52DAP	1.08003	0.708
57DAP/7DAP	0.95924	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92337	0.326
17DAP/reference	1.15337	0.361
27DAP/reference	1.0491	0.804
39DAP/reference	1.05994	1
41DAP/reference	1.19508	0.27
42DAP/reference	0.98357	0.612
43DAP/reference	1.36622	0.511
47DAP/reference	0.91107	0.293
52DAP/reference	1.14779	0.098
57DAP/reference	1.13017	0.438

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09406	0.198
17DAP/reference	1.01001	0.892
27DAP/reference	0.95215	0.366
39DAP/reference	1.01615	1
41DAP/reference	1.01102	1
42DAP/reference	0.91149	0.135
43DAP/reference	1.02623	0.939
47DAP/reference	0.80431	0.011
52DAP/reference	1.10395	0.034
57DAP/reference	1.0654	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90785	0.249
17DAP/reference	0.8394	0.308
27DAP/reference	0.78783	0.076
39DAP/reference	0.95478	0.464
41DAP/reference	1.03545	1
42DAP/reference	0.77254	0.087
43DAP/reference	0.87341	0.216
47DAP/reference	0.8888	0.052
52DAP/reference	0.60726	0.089
57DAP/reference	0.8637	0.092

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91698	1
26DAP/20DAP	0.92771	1
34DAP/26DAP	1.03565	1
51DAP/34DAP	0.97384	0.835
52DAP/51DAP	0.90568	1
53DAP/52DAP	1.06555	0.697
55DAP/53DAP	0.83137	0.159
57DAP/55DAP	0.98949	0.904
62DAP/57DAP	0.90272	0.871
68DAP/62DAP	1.11871	0.885
68DAP/14DAP	1.20058	0.091

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01929	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.924	0.527
Mature Green Tomato/Ripe Tomato	0.76166	0.079
Immature Eggplant/Mature Eggplant	1.42717	0.052
Ripe Pepper/Ripe Tomato	2.32847	0.256
Mature Eggplant/Ripe Tomato	2.70974	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97905	0.961
1-1-2/M82	0.87367	0.958
12-2/M82	1.26157
12-4/M82	1.31306
1-3/M82	0.99326	1
2-1-1/M82	1.38781
2-1/M82	N/A	N/A
2-6/M82	1.15072	0.695
3-2/M82	N/A	N/A
4-1-1/M82	0.92283	1
4-1/M82	0.97908
4-3-2/M82	0.927
4-3/M82	0.77846	0.72
5-3/M82	0.95421	1
6-2/M82	0.93526
6-3/M82	1.02709	1
7-1/M82	N/A	N/A
7-2/M82	1.02826	1
9-3-2/M82	0.5738

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.56663
IL2-6/WTpooled	1.22649	0.427
IL7-5/WTpooled	1.46188
IL7-3/WTpooled	0.88123	0.298
IL12-4/WTpooled	1.1743	0.516
IL1-4/WTpooled	1.25747	0.426
WT/WTpooled	1.07033	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	1.23635	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06769	0.774
DC3000/delta hrp 6h	1.0187	1
DC3000/delta hrp 12h	1.11857	1
DC3000/delta hrp 24h	1.03415	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.76026	0.66
DC3000 delta B/DC3000 delta AB	0.98489	0.936

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07019	1
Exp 36h	1.20806	1
Exp 60h	1.15239	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98825	1
Var 0h	0.80331	0.457
Var 12h I row2-row1	0.94187	0.514
Var 12h NI row2-row1	1.00937	1
Var 36h I row2-row1	1.01617	1
Var 36h NI row2-row1	0.96222	0.791
Var 60h I row2-row1	0.98511	1
Var 60h NI row2-row1	1.00061	1
Time course 0hI-0hNI	1.01028	1
Time course 12hI-12hNI	0.95756	0.458
Time course 36hI-36hNI	0.99599	0.768
Time course 60hI-60hNI	0.96342	0.319

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)	1.02162	0.748
transgenic ySAMdc/azygous control (breaker)	1.1008	1
transgenic ySAMdc/azygous control (red)	1.02028	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02299	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98847	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11706	1
Manapal/WT (break)	1.03136	1
Manapal/WT (red)	0.72216	0.181