Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.8.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16752	0.615
27DAP/17DAP	1.19941	0.804
39DAP/27DAP	0.93837	0.495
41DAP/39DAP	1.21024	0.549
42DAP/41DAP	1.11278	0.938
43DAP/42DAP	0.90689	0.813
47DAP/43DAP	0.94873	0.815
52DAP/47DAP	1.12686	0.902
57DAP/52DAP	0.85994	0.839

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12577	0.23
17DAP/reference	1.09757	0.016
27DAP/reference	0.9973	0.867
39DAP/reference	0.9565	0.298
41DAP/reference	0.98754	0.814
42DAP/reference	0.96682	0.225
43DAP/reference	0.99312	0.84
47DAP/reference	0.96916	0.242
52DAP/reference	0.95925	0.35
57DAP/reference	0.92366	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.026	0.858
27DAP/17DAP	1.00141	1
39DAP/27DAP	1.05201	0.558
41DAP/39DAP	1.02631	0.801
42DAP/41DAP	1.02688	0.916
43DAP/42DAP	0.95936	0.576
47DAP/43DAP	1.012	0.956
52DAP/47DAP	1.0272	0.927
57DAP/52DAP	0.96806	0.657
57DAP/7DAP	1.12048	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91317	0.069
17DAP/reference	0.93704	0.024
27DAP/reference	0.93846	0.028
39DAP/reference	0.9505	0.027
41DAP/reference	0.84518	0.021
42DAP/reference	0.8896	0.015
43DAP/reference	0.93833	0.241
47DAP/reference	0.91196	0.383
52DAP/reference	0.91273	0.137
57DAP/reference	0.89778	0.022

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00038	1
17DAP/reference	1.03632	0.471
27DAP/reference	0.91123	0.22
39DAP/reference	0.96646	0.348
41DAP/reference	1.15991	0.587
42DAP/reference	1.08261	0.68
43DAP/reference	1.13532	0.179
47DAP/reference	1.07496	0.366
52DAP/reference	1.0534	0.208
57DAP/reference	1.03992	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01397	0.918
17DAP/reference	1.0039	0.934
27DAP/reference	0.92962	0.067
39DAP/reference	0.93511	0.018
41DAP/reference	0.95073	0.132
42DAP/reference	0.85131	0.036
43DAP/reference	0.92931	0.125
47DAP/reference	0.90993	0.249
52DAP/reference	0.90455	0.228
57DAP/reference	0.83499	0.057

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02641	0.966
26DAP/20DAP	1.06033	0.834
34DAP/26DAP	1.09898	0.819
51DAP/34DAP	1.80966	0.038
52DAP/51DAP	1.05549	0.51
53DAP/52DAP	1.53871	0.028
55DAP/53DAP	1.2387	0.058
57DAP/55DAP	0.68894	0.09
62DAP/57DAP	0.86201	0.681
68DAP/62DAP	0.78945	0.769
68DAP/14DAP	1.04961	0.802

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82512	0.175

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9265
Mature Green Tomato/Ripe Tomato	1.35354	0.237
Immature Eggplant/Mature Eggplant	1.40532	0.088
Ripe Pepper/Ripe Tomato	0.47209	0.224
Mature Eggplant/Ripe Tomato	0.31944	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01134	1
1-1-2/M82	1.01367	1
12-2/M82	1.06207	1
12-4/M82	0.91961	1
1-3/M82	0.98403	1
2-1-1/M82	1.20404	0.403
2-1/M82	0.78587	0.318
2-6/M82	0.97725	1
3-2/M82	1.22154	0.717
4-1-1/M82	1.12372
4-1/M82	1.07515	1
4-3-2/M82	0.86834	0.698
4-3/M82	1.01239	1
5-3/M82	1.04948	1
6-2/M82	0.99626
6-3/M82	0.9554	1
7-1/M82	1.03735
7-2/M82	0.91577	0.578
9-3-2/M82	0.80395	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00944	1
IL2-6/WTpooled	0.66797	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.10743
IL12-4/WTpooled	0.72626	0.71
IL1-4/WTpooled	1.03945	1
WT/WTpooled	0.98553	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	1.0084	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97614	1
DC3000/delta hrp 6h	0.87728	0.95
DC3000/delta hrp 12h	1.03495	1
DC3000/delta hrp 24h	1.14454	0.264

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.25138	0.057
DC3000 delta B/DC3000 delta AB	1.04665	0.539

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.76962	1
Exp 36h	N/A	N/A
Exp 60h	1.49948	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99017	1
Var 0h	1.01935	1
Var 12h I row2-row1	1.02903	0.736
Var 12h NI row2-row1	0.85156	0.627
Var 36h I row2-row1	0.85309	1
Var 36h NI row2-row1	0.89835	0.549
Var 60h I row2-row1	0.86962	0.582
Var 60h NI row2-row1	1.11905	0.904
Time course 0hI-0hNI	1.00949	0.852
Time course 12hI-12hNI	1.00202	1
Time course 36hI-36hNI	1.08289	0.128
Time course 60hI-60hNI	1.44953	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)	1.1944	0.286
transgenic ySAMdc/azygous control (breaker)	1.88379	0.166
transgenic ySAMdc/azygous control (red)	1.23702	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99348	0.651

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.67826	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.58648	1
Manapal/WT (break)	1.04182	1
Manapal/WT (red)	0.97153	0.863