Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.2.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97669	0.77
27DAP/17DAP	1.11562	0.873
39DAP/27DAP	0.97454	0.733
41DAP/39DAP	1.18558	0.715
42DAP/41DAP	0.9903	1
43DAP/42DAP	0.81859	0.705
47DAP/43DAP	1.18909	0.733
52DAP/47DAP	1.1673	0.869
57DAP/52DAP	0.90762	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82546	0.073
17DAP/reference	0.62195	0.008
27DAP/reference	1.13925	0.539
39DAP/reference	0.90008	0.267
41DAP/reference	0.62567	0.009
42DAP/reference	0.92403	0.169
43DAP/reference	0.8226	0.029
47DAP/reference	0.98684	0.503
52DAP/reference	1.77134	0.069
57DAP/reference	1.83328	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90302	0.219
27DAP/17DAP	1.00439	0.969
39DAP/27DAP	1.09881	0.758
41DAP/39DAP	1.295	0.663
42DAP/41DAP	0.91922	0.524
43DAP/42DAP	0.79956	0.101
47DAP/43DAP	0.90388	0.606
52DAP/47DAP	1.00247	0.962
57DAP/52DAP	1.2398	0.333
57DAP/7DAP	1.26369

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01771	1
17DAP/reference	1.09876	1
27DAP/reference	1.24444	0.06
39DAP/reference	1.02984	0.865
41DAP/reference	1.25906	0.215
42DAP/reference	1.11145	0.889
43DAP/reference	1.38777	0.111
47DAP/reference	1.35958	0.084
52DAP/reference	1.23587	0.212
57DAP/reference	1.1735	0.07

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84406	0.17
17DAP/reference	0.78376	0.068
27DAP/reference	1.16733	0.345
39DAP/reference	1.26271	0.477
41DAP/reference	1.3218	0.177
42DAP/reference	1.49844	0.013
43DAP/reference	1.10961	0.899
47DAP/reference	0.95706	0.379
52DAP/reference	1.2477	0.03
57DAP/reference	0.79157	0.125

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04685	0.775
17DAP/reference	1.24729	0.443
27DAP/reference	1.05532	0.834
39DAP/reference	1.51553	0.075
41DAP/reference	1.74521	0.041
42DAP/reference	1.85864	0.106
43DAP/reference	1.9338	0.033
47DAP/reference	1.2037	0.63
52DAP/reference	1.19178	0.517
57DAP/reference	3.815	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19976	0.966
26DAP/20DAP	0.84479	0.512
34DAP/26DAP	1.41002	0.819
51DAP/34DAP	1.12004	0.416
52DAP/51DAP	1.10923	0.733
53DAP/52DAP	0.93614	0.776
55DAP/53DAP	1.04857	0.982
57DAP/55DAP	0.99214	0.839
62DAP/57DAP	1.5438	0.515
68DAP/62DAP	4.22087	0.023
68DAP/14DAP	5.09923	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90292	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.37892	0.08
Mature Green Tomato/Ripe Tomato	0.92311	0.569
Immature Eggplant/Mature Eggplant	3.26983	0.05
Ripe Pepper/Ripe Tomato	3.34888	0.258
Mature Eggplant/Ripe Tomato	0.999	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.27033	0.551
1-1-2/M82	1.19661	1
12-2/M82	1.16646	1
12-4/M82	1.25953	1
1-3/M82	1.01229	1
2-1-1/M82	0.73984
2-1/M82	N/A	N/A
2-6/M82	0.9403	1
3-2/M82	0.80743
4-1-1/M82	0.80905	1
4-1/M82	2.03545
4-3-2/M82	1.22184	1
4-3/M82	0.84809	0.72
5-3/M82	1.07006	1
6-2/M82	0.64971	1
6-3/M82	1.03036	1
7-1/M82	0.79885	0.509
7-2/M82	0.63849	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87928	1
IL2-6/WTpooled	1.03683	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.70143
IL12-4/WTpooled	0.93354	0.71
IL1-4/WTpooled	0.83759	0.476
WT/WTpooled	1.06501	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	1.167	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14393	0.921
DC3000/delta hrp 6h	0.90341	0.95
DC3000/delta hrp 12h	1.02888	1
DC3000/delta hrp 24h	0.68733	0.04

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00462	1
Exp 36h	1.0353	1
Exp 60h	1.1635	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98439
Var 0h	1.12693	0.98
Var 12h I row2-row1	1.1614	0.58
Var 12h NI row2-row1	0.85697	0.713
Var 36h I row2-row1	1.13601	1
Var 36h NI row2-row1	0.94721
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.82486	0.866
Time course 0hI-0hNI	0.95141	0.754
Time course 12hI-12hNI	0.95274	0.745
Time course 36hI-36hNI	1.23636	0.08
Time course 60hI-60hNI	1.86091	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)	0.99074	0.931
transgenic ySAMdc/azygous control (breaker)	1.21404	0.248
transgenic ySAMdc/azygous control (red)	0.93102	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0209	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9919	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)	1.43488	0.381
Manapal/WT (red)	0.96781	0.728