Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.10.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0675	0.851
27DAP/17DAP	1.00565	1
39DAP/27DAP	0.9899	0.798
41DAP/39DAP	1.27626	0.708
42DAP/41DAP	0.89294	1
43DAP/42DAP	1.00307	0.925
47DAP/43DAP	1.21131	0.49
52DAP/47DAP	0.87773	0.682
57DAP/52DAP	1.23316	0.817

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99225	0.707
17DAP/reference	1.01359	1
27DAP/reference	1.01561	1
39DAP/reference	1.1622	0.243
41DAP/reference	1.14531	0.145
42DAP/reference	0.95657	0.202
43DAP/reference	0.95624	0.429
47DAP/reference	1.00307	0.636
52DAP/reference	0.91691	0.189
57DAP/reference	0.99796	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27607	0.086
27DAP/17DAP	0.92802	0.648
39DAP/27DAP	0.87282	0.173
41DAP/39DAP	0.89272	0.567
42DAP/41DAP	1.17384	0.159
43DAP/42DAP	1.04599	0.83
47DAP/43DAP	0.85173	0.112
52DAP/47DAP	0.99909	0.982
57DAP/52DAP	0.93515	0.463
57DAP/7DAP	0.95783	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89219	0.296
17DAP/reference	0.93736	0.295
27DAP/reference	1.03398	0.664
39DAP/reference	0.82794	0.034
41DAP/reference	0.86045	0.098
42DAP/reference	0.84592	0.066
43DAP/reference	0.77658	0.017
47DAP/reference	0.86504	0.222
52DAP/reference	0.824	0.057
57DAP/reference	0.80351	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2659	0.495
17DAP/reference	1.18006	0.33
27DAP/reference	1.12682	0.288
39DAP/reference	1.05891	0.956
41DAP/reference	0.96264	0.412
42DAP/reference	1.16825	0.185
43DAP/reference	1.6462	0.029
47DAP/reference	1.33202	0.019
52DAP/reference	1.15159	0.393
57DAP/reference	1.03255	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91705	0.135
17DAP/reference	1.22771	0.206
27DAP/reference	0.95144	0.416
39DAP/reference	0.91725	0.046
41DAP/reference	1.33703	0.369
42DAP/reference	1.08407	0.589
43DAP/reference	1.05625	0.961
47DAP/reference	1.25647	0.025
52DAP/reference	0.93794	0.395
57DAP/reference	1.21508	0.116

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.87521	1
26DAP/20DAP	1.10433	0.818
34DAP/26DAP	1.10825	0.819
51DAP/34DAP	1.09813	0.613
52DAP/51DAP	1.19371	0.304
53DAP/52DAP	0.91553	0.663
55DAP/53DAP	0.86323	0.489
57DAP/55DAP	0.99044	0.911
62DAP/57DAP	1.06008	0.868
68DAP/62DAP	0.96956	0.863
68DAP/14DAP	1.06707

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.57465	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.55303	0.116
Mature Green Tomato/Ripe Tomato	2.18402	0.166
Immature Eggplant/Mature Eggplant	0.61578	0.292
Ripe Pepper/Ripe Tomato	1.71797	0.258
Mature Eggplant/Ripe Tomato	1.83533	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.10681
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	N/A	N/A
5-3/M82	0.96556	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.97303
7-2/M82	0.89176
9-3-2/M82	0.84836

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.42693	0.277
IL2-6/WTpooled	1.2145	0.584
IL7-5/WTpooled	1.63458	0.495
IL7-3/WTpooled	0.82332	0.418
IL12-4/WTpooled	1.23914	0.695
IL1-4/WTpooled	0.84399	0.562
WT/WTpooled	1.04174	0.999

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	0.8247	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.86488	1
DC3000/delta hrp 6h	0.89934	0.95
DC3000/delta hrp 12h	1.0016	1
DC3000/delta hrp 24h	0.67937	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.81045	0.025
DC3000 delta B/DC3000 delta AB	0.75683	0.024

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.71004	0.265
Exp 36h	0.751	0.471
Exp 60h	0.90934	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01127	1
Var 0h	0.58253	0.259
Var 12h I row2-row1	0.97321	0.948
Var 12h NI row2-row1	1.02016	1
Var 36h I row2-row1	0.91009	0.575
Var 36h NI row2-row1	1.42386	0.482
Var 60h I row2-row1	0.84181	0.287
Var 60h NI row2-row1	1.40306	0.793
Time course 0hI-0hNI	0.98543	0.97
Time course 12hI-12hNI	0.9812	0.86
Time course 36hI-36hNI	0.85591	0.027
Time course 60hI-60hNI	0.3048	0.006

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)	1.01087	0.863
transgenic ySAMdc/azygous control (breaker)	1.53014	0.172
transgenic ySAMdc/azygous control (red)	1.33924	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00245	0.909

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.32541	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.3244	0.083
Manapal/WT (break)	3.89571	0.13
Manapal/WT (red)	2.82115	0.133