Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.17.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8367	0.265
27DAP/17DAP	0.80088	0.397
39DAP/27DAP	1.54733	0.147
41DAP/39DAP	0.84412	0.412
42DAP/41DAP	1.08828	0.971
43DAP/42DAP	1.00421	0.937
47DAP/43DAP	0.83598	0.499
52DAP/47DAP	1.15635	0.844
57DAP/52DAP	1.15959	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1994	0.075
17DAP/reference	0.9472	0.278
27DAP/reference	0.90921	0.134
39DAP/reference	0.92874	0.292
41DAP/reference	0.93014	0.065
42DAP/reference	1.13822	0.005
43DAP/reference	1.00963	0.982
47DAP/reference	1.11423	0.039
52DAP/reference	1.04427	0.84
57DAP/reference	1.23627	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87066	0.112
27DAP/17DAP	0.98086	0.887
39DAP/27DAP	0.9841	0.953
41DAP/39DAP	1.1028	0.719
42DAP/41DAP	1.03934	0.935
43DAP/42DAP	0.86846	0.105
47DAP/43DAP	1.09036	0.182
52DAP/47DAP	0.93163	0.66
57DAP/52DAP	0.93129	0.43
57DAP/7DAP	0.64037	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23459	0.056
17DAP/reference	1.17762	0.016
27DAP/reference	1.21686	0.006
39DAP/reference	1.11202	0.016
41DAP/reference	1.05177	0.314
42DAP/reference	1.07538	0.1
43DAP/reference	1.07888	0.148
47DAP/reference	1.19433	0.034
52DAP/reference	1.16266	0.008
57DAP/reference	1.15249	0.049

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23498	0.037
17DAP/reference	1.14707	0.197
27DAP/reference	1.16393	0.156
39DAP/reference	1.16652	0.041
41DAP/reference	1.07953	0.599
42DAP/reference	1.01126	1
43DAP/reference	1.0146	0.91
47DAP/reference	1.04756	0.498
52DAP/reference	0.98892	0.576
57DAP/reference	0.91869	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25608	0.025
17DAP/reference	0.9964	0.839
27DAP/reference	1.05319	0.357
39DAP/reference	1.09788	0.037
41DAP/reference	1.06824	0.306
42DAP/reference	1.20852	0.074
43DAP/reference	1.39284	0.092
47DAP/reference	1.06339	0.294
52DAP/reference	1.19322	0.318
57DAP/reference	1.66598	0.037

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89852	1
26DAP/20DAP	1.38784	0.141
34DAP/26DAP	0.96518	0.945
51DAP/34DAP	0.99807	0.937
52DAP/51DAP	0.88815	1
53DAP/52DAP	1.03251	0.91
55DAP/53DAP	1.06034	0.976
57DAP/55DAP	1.22764	0.51
62DAP/57DAP	1.04507	0.868
68DAP/62DAP	1.1713	0.31
68DAP/14DAP	1.41017	0.026

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.86169	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.96973	0.726
Mature Green Tomato/Ripe Tomato	1.59048	0.077
Immature Eggplant/Mature Eggplant	0.97543	0.808
Ripe Pepper/Ripe Tomato	1.3722	1
Mature Eggplant/Ripe Tomato	0.73399	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01381	1
1-1-2/M82	1.03536	1
12-2/M82	1.12141	1
12-4/M82	1.08245	1
1-3/M82	0.99073	1
2-1-1/M82	1.04956	0.764
2-1/M82	0.80874	0.345
2-6/M82	1.02867	0.452
3-2/M82	1.00421	1
4-1-1/M82	1.23005	1
4-1/M82	1.34635	0.853
4-3-2/M82	1.56413	1
4-3/M82	1.14876	1
5-3/M82	1.08249	0.496
6-2/M82	0.94131	1
6-3/M82	1.06425	1
7-1/M82	1.01386	1
7-2/M82	1.04412	1
9-3-2/M82	1.2787	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97076
IL2-6/WTpooled	1.17218
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.2426	1
IL12-4/WTpooled	0.89157	1
IL1-4/WTpooled	0.91145	0.699
WT/WTpooled	0.95506	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	1.2562	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1	1
DC3000/delta hrp 6h	0.88955	0.95
DC3000/delta hrp 12h	1.02583	1
DC3000/delta hrp 24h	1.08352	0.264

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11183	0.102
DC3000 delta B/DC3000 delta AB	1.13049	0.345

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.84299	1
Exp 36h	1.31407	1
Exp 60h	1.10467	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97294	1
Var 0h	0.74812	0.206
Var 12h I row2-row1	0.97725	0.948
Var 12h NI row2-row1	1.33005	0.649
Var 36h I row2-row1	0.92461	1
Var 36h NI row2-row1	0.976	0.791
Var 60h I row2-row1	0.96161	0.582
Var 60h NI row2-row1	0.87094	0.292
Time course 0hI-0hNI	0.9142	0.306
Time course 12hI-12hNI	1.01659	0.82
Time course 36hI-36hNI	1.35493	0.023
Time course 60hI-60hNI	1.57087	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)	0.94979	0.567
transgenic ySAMdc/azygous control (breaker)	1.96253	0.178
transgenic ySAMdc/azygous control (red)	1.35101	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94253	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75853	0.172
Manapal/WT (break)	0.98047	1
Manapal/WT (red)	0.89095	0.36