Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.9.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0001	0.876
27DAP/17DAP	1.34865	0.833
39DAP/27DAP	0.8831	0.549
41DAP/39DAP	0.88756	0.638
42DAP/41DAP	1.05876	0.999
43DAP/42DAP	0.86072	0.713
47DAP/43DAP	1.36376	0.595
52DAP/47DAP	0.9251	0.702
57DAP/52DAP	1.27379	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06393	0.403
17DAP/reference	1.22337	0.024
27DAP/reference	1.0371	0.672
39DAP/reference	0.99995	0.991
41DAP/reference	1.0456	0.158
42DAP/reference	0.95067	0.163
43DAP/reference	1.06056	0.425
47DAP/reference	0.90152	0.032
52DAP/reference	0.82875	0.016
57DAP/reference	0.83403	0.078

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23419	0.492
27DAP/17DAP	0.88396	0.684
39DAP/27DAP	0.89556	0.437
41DAP/39DAP	1.01926	1
42DAP/41DAP	1.05352	0.929
43DAP/42DAP	1.10079	0.699
47DAP/43DAP	0.97867	0.911
52DAP/47DAP	0.90212	0.739
57DAP/52DAP	0.95172	0.705
57DAP/7DAP	1.66167	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1661	0.351
17DAP/reference	1.09385	0.822
27DAP/reference	1.05113	1
39DAP/reference	0.85117	0.013
41DAP/reference	1.05275	1
42DAP/reference	0.73224	0.038
43DAP/reference	0.70009	0.011
47DAP/reference	0.89224	0.168
52DAP/reference	0.85213	0.179
57DAP/reference	0.84577	0.086

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04752	0.776
17DAP/reference	1.04614	0.613
27DAP/reference	0.95104	0.438
39DAP/reference	0.93294	0.274
41DAP/reference	0.84242	0.04
42DAP/reference	0.86657	0.108
43DAP/reference	1.10482	0.547
47DAP/reference	0.80547	0.149
52DAP/reference	0.85995	0.017
57DAP/reference	1.01726	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01512	0.804
17DAP/reference	1.06259	0.824
27DAP/reference	1.08671	0.408
39DAP/reference	0.96856	0.591
41DAP/reference	0.97933	0.618
42DAP/reference	0.84855	0.134
43DAP/reference	0.80348	0.171
47DAP/reference	0.92911	0.269
52DAP/reference	1.17477	0.801
57DAP/reference	0.6558	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10049	0.966
26DAP/20DAP	1.28994	1
34DAP/26DAP	1.01266	1
51DAP/34DAP	3.85361
52DAP/51DAP	0.88925	1
53DAP/52DAP	0.52429
55DAP/53DAP	1.01378	0.82
57DAP/55DAP	1.27764	0.935
62DAP/57DAP	1.04614	1
68DAP/62DAP	1.04822	0.863
68DAP/14DAP	0.90902	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.24531	0.496

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.15304	0.149
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.35125
Mature Eggplant/Ripe Tomato	0.98783	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.22665
12-2/M82	1.93043
12-4/M82	0.75467	0.298
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.64063
5-3/M82	1.97194	0.467
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.98649	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.22794
IL2-6/WTpooled	1.08281	0.427
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.80035	0.294
IL12-4/WTpooled	0.9855	1
IL1-4/WTpooled	0.86767	0.402
WT/WTpooled	1.07135	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	0.92868	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03556	1
DC3000/delta hrp 6h	1.05183	1
DC3000/delta hrp 12h	1.33397	1
DC3000/delta hrp 24h	1.82101	0.025

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	0.82316	0.749
Exp 60h	0.83704	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	1.73205	1
Var 0h	0.84838	0.933
Var 12h I row2-row1	0.89515	0.418
Var 12h NI row2-row1	2.20702	1
Var 36h I row2-row1	0.98256	1
Var 36h NI row2-row1	0.60032	0.706
Var 60h I row2-row1	0.90195	0.285
Var 60h NI row2-row1	0.89968	1
Time course 0hI-0hNI	0.99119	1
Time course 12hI-12hNI	0.99637	1
Time course 36hI-36hNI	0.98743	0.654
Time course 60hI-60hNI	0.55104	0.007

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)	1.00465	1
transgenic ySAMdc/azygous control (breaker)	0.93605	1
transgenic ySAMdc/azygous control (red)	0.89875	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01299	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09459	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80019	0.172
Manapal/WT (break)	0.97397	1
Manapal/WT (red)	0.64926	0.424