Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.12.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86909	0.486
27DAP/17DAP	0.90931	0.81
39DAP/27DAP	1.24858	0.53
41DAP/39DAP	0.77909	0.208
42DAP/41DAP	1.11798	0.931
43DAP/42DAP	1.02866	1
47DAP/43DAP	1.16122	0.285
52DAP/47DAP	1.42278	0.3
57DAP/52DAP	1.36038	0.837

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1135	0.846
17DAP/reference	1.16321	0.384
27DAP/reference	0.96459	0.595
39DAP/reference	1.15579	0.343
41DAP/reference	1.08696	0.552
42DAP/reference	1.22298	0.003
43DAP/reference	1.22075	0.403
47DAP/reference	1.21655	0.136
52DAP/reference	1.26563	0.056
57DAP/reference	1.25381	0.127

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.63325
27DAP/17DAP	1.71466
39DAP/27DAP	0.97086
41DAP/39DAP	1.63133
42DAP/41DAP	1.35466	0.81
43DAP/42DAP	N/A	N/A
47DAP/43DAP	0.97138	0.87
52DAP/47DAP	0.45718
57DAP/52DAP	0.79842	0.665
57DAP/7DAP	2.31437

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87875	0.115
17DAP/reference	1.02731	1
27DAP/reference	1.0197	1
39DAP/reference	0.83123	0.064
41DAP/reference	0.815	0.046
42DAP/reference	0.74996	0.021
43DAP/reference	0.70439	0.013
47DAP/reference	1.08999	0.965
52DAP/reference	0.84627	0.15
57DAP/reference	0.84265	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76415	0.17
17DAP/reference	1.04665	0.176
27DAP/reference	0.90358	0.34
39DAP/reference	1.22997	0.263
41DAP/reference	1.29436	0.149
42DAP/reference	1.04615	0.73
43DAP/reference	1.22615	0.109
47DAP/reference	1.24824	0.148
52DAP/reference	1.02155	1
57DAP/reference	0.84239	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92941	0.335
17DAP/reference	1.08412	0.602
27DAP/reference	0.99023	0.691
39DAP/reference	0.87025	0.133
41DAP/reference	1.023	0.961
42DAP/reference	1.11505	0.55
43DAP/reference	1.14119	0.734
47DAP/reference	1.06523	0.901
52DAP/reference	0.9727	0.675
57DAP/reference	1.06711	0.991

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.58183	0.611
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.60365
51DAP/34DAP	1.1959	0.73
52DAP/51DAP	0.68178
53DAP/52DAP	1.48084	0.057
55DAP/53DAP	0.96117	0.807
57DAP/55DAP	N/A	N/A
62DAP/57DAP	1.1553	0.902
68DAP/62DAP	1.1177	0.919
68DAP/14DAP	0.99662

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.35731	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.69629	0.045
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.41657
Mature Eggplant/Ripe Tomato	0.49354

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.10079
12-2/M82	N/A	N/A
12-4/M82	1.20221	0.694
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.48869
4-3-2/M82	1.25257	0.508
4-3/M82	1.28531	1
5-3/M82	1.04881	0.572
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.89171
7-2/M82	N/A	N/A
9-3-2/M82	1.30457	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.24018
IL2-6/WTpooled	0.99191	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.01997	1
IL12-4/WTpooled	0.99637	1
IL1-4/WTpooled	0.96989	0.402
WT/WTpooled	1.00448	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	0.93749	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.05479
DC3000/delta hrp 24h	0.87062	0.269

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	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	N/A	N/A
Var 0h	1.15605	0.259
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)	1.27162	0.699
transgenic ySAMdc/azygous control (breaker)	0.87595	0.49
transgenic ySAMdc/azygous control (red)	1.02984	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.8831	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.56603	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92217	1
Manapal/WT (break)	0.99931	1
Manapal/WT (red)	1.16951	1