Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.3.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.17234
27DAP/17DAP	1.35639	0.742
39DAP/27DAP	1.00114	0.84
41DAP/39DAP	0.94424	0.886
42DAP/41DAP	1.1144	1
43DAP/42DAP	1.03847	1
47DAP/43DAP	1.18945	0.756
52DAP/47DAP	0.97471	0.789
57DAP/52DAP	1.11236	0.859

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03022	1
17DAP/reference	0.92852	0.278
27DAP/reference	1.00474	0.923
39DAP/reference	0.84821	0.032
41DAP/reference	0.91148	0.267
42DAP/reference	0.87077	0.003
43DAP/reference	0.90271	0.024
47DAP/reference	0.95334	0.279
52DAP/reference	1.11078	0.102
57DAP/reference	1.05384	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06495	0.841
27DAP/17DAP	1.04701
39DAP/27DAP	1.03522	0.925
41DAP/39DAP	0.39623
42DAP/41DAP	1.25827	0.947
43DAP/42DAP	0.89135	0.027
47DAP/43DAP	1.14995	1
52DAP/47DAP	0.95589	0.868
57DAP/52DAP	1.0677
57DAP/7DAP	0.46921	0.143

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1335	0.344
17DAP/reference	1.15387	0.437
27DAP/reference	1.20125	0.197
39DAP/reference	1.40698	0.029
41DAP/reference	1.07916	0.812
42DAP/reference	1.20193	0.132
43DAP/reference	1.4001	0.014
47DAP/reference	0.96867	0.504
52DAP/reference	1.12781	0.941
57DAP/reference	1.33622	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96232	0.592
17DAP/reference	0.85279	0.062
27DAP/reference	0.90454	0.144
39DAP/reference	0.96987	0.428
41DAP/reference	0.98226	0.459
42DAP/reference	0.87095	0.042
43DAP/reference	0.94047	0.37
47DAP/reference	0.85278	0.038
52DAP/reference	0.94276	0.121
57DAP/reference	0.84462	0.063

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09434	0.616
17DAP/reference	1.0637	0.689
27DAP/reference	1.1008	0.171
39DAP/reference	1.17421	0.057
41DAP/reference	1.06318	0.714
42DAP/reference	1.15039	0.313
43DAP/reference	1.19631	0.314
47DAP/reference	0.99882	0.731
52DAP/reference	0.82906	0.327
57DAP/reference	1.01147	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09254	0.966
26DAP/20DAP	0.65714
34DAP/26DAP	N/A	N/A
51DAP/34DAP	1.46745	0.581
52DAP/51DAP	N/A	N/A
53DAP/52DAP	0.71099	0.684
55DAP/53DAP	1.13794	0.494
57DAP/55DAP	0.7756	0.148
62DAP/57DAP	1.23575	0.393
68DAP/62DAP	1.36115	0.214
68DAP/14DAP	1.45262	0.384

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1204	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	0.58751	0.018
Immature Eggplant/Mature Eggplant	0.76964
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.99124	1
12-2/M82	1.31473
12-4/M82	0.96342	1
1-3/M82	N/A	N/A
2-1-1/M82	0.40516
2-1/M82	N/A	N/A
2-6/M82	1.22945	1
3-2/M82	0.96501
4-1-1/M82	N/A	N/A
4-1/M82	1.22807	0.512
4-3-2/M82	1.4033	0.232
4-3/M82	0.97789
5-3/M82	0.50024	0.447
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.91012	1
7-2/M82	1.55128
9-3-2/M82	1.29354	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88834	0.321
IL2-6/WTpooled	1.05841	1
IL7-5/WTpooled	0.94293	1
IL7-3/WTpooled	0.82686	0.31
IL12-4/WTpooled	0.98665	1
IL1-4/WTpooled	1.01419	1
WT/WTpooled	1.01461	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	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	1.14936	0.823
DC3000/delta hrp 6h	1.17778	0.95
DC3000/delta hrp 12h	1.01997	1
DC3000/delta hrp 24h	1.25897	0.06

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	1.67893

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.85092	0.456
Exp 60h	0.70154	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.74521	0.231
transgenic ySAMdc/azygous control (breaker)	0.72093	0.15
transgenic ySAMdc/azygous control (red)	1.35209	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09313	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97589	0.59

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)	N/A	N/A
Manapal/WT (red)	0.85276	0.181