Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.14.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11763	0.67
27DAP/17DAP	1.13405	0.911
39DAP/27DAP	0.93802	0.631
41DAP/39DAP	1.24924	0.553
42DAP/41DAP	1.00969	1
43DAP/42DAP	0.99362	0.937
47DAP/43DAP	1.19812	0.618
52DAP/47DAP	1.16286	0.784
57DAP/52DAP	1.18499	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91286	0.098
17DAP/reference	0.87418	0.013
27DAP/reference	0.94888	0.232
39DAP/reference	0.97434	0.75
41DAP/reference	0.94835	0.341
42DAP/reference	0.95662	0.145
43DAP/reference	0.99188	0.82
47DAP/reference	0.89158	0.006
52DAP/reference	0.89094	0.131
57DAP/reference	0.94767	0.078

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01928	1
27DAP/17DAP	1.00771	1
39DAP/27DAP	1.17568	0.219
41DAP/39DAP	1.01322	1
42DAP/41DAP	1.02146	1
43DAP/42DAP	1.01313	1
47DAP/43DAP	1.0287	0.914
52DAP/47DAP	0.99731	0.947
57DAP/52DAP	0.94761	0.546
57DAP/7DAP	1.15567	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82483	0.069
17DAP/reference	0.96931	0.338
27DAP/reference	1.02397	0.974
39DAP/reference	0.98519	0.64
41DAP/reference	0.98121	0.512
42DAP/reference	0.9901	0.554
43DAP/reference	0.91487	0.21
47DAP/reference	0.83189	0.05
52DAP/reference	0.89036	0.043
57DAP/reference	0.9521	0.28

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01044	0.802
17DAP/reference	0.97311	0.51
27DAP/reference	0.8276	0.053
39DAP/reference	0.88238	0.105
41DAP/reference	0.93591	0.277
42DAP/reference	0.83428	0.037
43DAP/reference	1.15752	0.435
47DAP/reference	0.96076	0.214
52DAP/reference	0.92013	0.029
57DAP/reference	1.03938	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87035	0.059
17DAP/reference	0.92929	0.374
27DAP/reference	1.08783	0.298
39DAP/reference	1.0284	0.546
41DAP/reference	1.04626	0.818
42DAP/reference	0.92186	0.361
43DAP/reference	0.84971	0.098
47DAP/reference	0.89935	0.278
52DAP/reference	1.05042	0.566
57DAP/reference	0.68564	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0831	0.966
26DAP/20DAP	0.98679	1
34DAP/26DAP	0.99048	1
51DAP/34DAP	0.88379	0.376
52DAP/51DAP	1.00874	0.925
53DAP/52DAP	1.12096	0.537
55DAP/53DAP	1.01618	0.876
57DAP/55DAP	1.01203	0.953
62DAP/57DAP	1.07296	0.723
68DAP/62DAP	0.9615	0.668
68DAP/14DAP	1.08327	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97438	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.98012	0.66
Immature Eggplant/Mature Eggplant	1.09006
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.72969

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01307	1
1-1-2/M82	1.01246	1
12-2/M82	1.03049	1
12-4/M82	0.96009	1
1-3/M82	0.86121	0.501
2-1-1/M82	1.09601	0.764
2-1/M82	1.06774	1
2-6/M82	0.89313	1
3-2/M82	0.90287
4-1-1/M82	1.16617	1
4-1/M82	0.97199
4-3-2/M82	0.9027	0.487
4-3/M82	1.06652	1
5-3/M82	0.98403	1
6-2/M82	0.88734	1
6-3/M82	1.04149	1
7-1/M82	0.98893
7-2/M82	1.07935	1
9-3-2/M82	0.79651	0.355

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	N/A	N/A
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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98963	1
DC3000/delta hrp 6h	1.64015	1
DC3000/delta hrp 12h	1.16595	1
DC3000/delta hrp 24h	1.02565	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18081	0.094
DC3000 delta B/DC3000 delta AB	0.96956	0.805

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96219	1
Var 0h	1.13297	0.936
Var 12h I row2-row1	1.10072	0.202
Var 12h NI row2-row1	1.06091	1
Var 36h I row2-row1	0.84113	1
Var 36h NI row2-row1	0.9529	0.791
Var 60h I row2-row1	1.27462	0.562
Var 60h NI row2-row1	1.0823	1
Time course 0hI-0hNI	1.10286	0.799
Time course 12hI-12hNI	1.07344	0.698
Time course 36hI-36hNI	0.98948	0.654
Time course 60hI-60hNI	1.24127	0.069

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)	0.9746	0.789
transgenic ySAMdc/azygous control (breaker)	1.80261	0.178
transgenic ySAMdc/azygous control (red)	1.76549	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99847	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00331	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.14175	0.381
Manapal/WT (red)	0.79145	0.184