Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.18.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00757	0.919
27DAP/17DAP	1.27557	0.833
39DAP/27DAP	0.63826	0.392
41DAP/39DAP	1.30646	0.422
42DAP/41DAP	1.31105	0.644
43DAP/42DAP	1.15061	1
47DAP/43DAP	1.33393	0.538
52DAP/47DAP	1.03003	0.859
57DAP/52DAP	0.86059	0.86

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97764	0.562
17DAP/reference	1.08066	0.33
27DAP/reference	1.10185	0.146
39DAP/reference	1.0793	0.445
41DAP/reference	1.08298	0.312
42DAP/reference	0.93203	0.046
43DAP/reference	1.03409	0.445
47DAP/reference	1.07292	0.223
52DAP/reference	1.26082	0.021
57DAP/reference	1.09642	0.084

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13995	0.189
27DAP/17DAP	1.18415	0.378
39DAP/27DAP	1.16204	0.471
41DAP/39DAP	0.89292	0.547
42DAP/41DAP	1.06276	0.961
43DAP/42DAP	0.73904	0.038
47DAP/43DAP	0.98406	0.923
52DAP/47DAP	1.32499	0.3
57DAP/52DAP	1.22641	0.378
57DAP/7DAP	1.06865	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1	1
17DAP/reference	1.00946	1
27DAP/reference	1.06442	0.197
39DAP/reference	1.15364	0.017
41DAP/reference	1.11223	0.314
42DAP/reference	1.06966	0.308
43DAP/reference	1.01987	0.974
47DAP/reference	1.02326	1
52DAP/reference	1.11034	0.086
57DAP/reference	1.08753	0.268

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15668	0.463
17DAP/reference	0.97736	0.576
27DAP/reference	1.02111	1
39DAP/reference	0.96694	0.306
41DAP/reference	0.85613	0.11
42DAP/reference	0.96344	0.261
43DAP/reference	1.11401	0.401
47DAP/reference	0.88644	0.081
52DAP/reference	1.01123	1
57DAP/reference	0.96705	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00996	1
17DAP/reference	0.91762	0.335
27DAP/reference	1.05138	0.425
39DAP/reference	0.98295	0.544
41DAP/reference	0.91796	0.132
42DAP/reference	0.91402	0.287
43DAP/reference	0.83459	0.188
47DAP/reference	1.07584	0.443
52DAP/reference	1.22142	0.167
57DAP/reference	1.4022	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06457	0.966
26DAP/20DAP	1.33156	0.147
34DAP/26DAP	1.01499	1
51DAP/34DAP	1.0659	0.883
52DAP/51DAP	0.84708	1
53DAP/52DAP	1.21916	0.502
55DAP/53DAP	0.84831	0.154
57DAP/55DAP	0.97461	0.804
62DAP/57DAP	1.0105	1
68DAP/62DAP	1.03836	0.914
68DAP/14DAP	1.16501	0.615

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03554	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9349	0.577
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.91953	0.117
Ripe Pepper/Ripe Tomato	0.7675	0.293
Mature Eggplant/Ripe Tomato	0.68522	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00518	1
1-1-2/M82	1.03615	1
12-2/M82	0.95086	0.955
12-4/M82	0.80837	0.619
1-3/M82	1.39281	0.248
2-1-1/M82	1.23335	0.375
2-1/M82	1.14371	1
2-6/M82	1.01592	1
3-2/M82	0.64858	1
4-1-1/M82	1.10772	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.30751	1
5-3/M82	1.01499	1
6-2/M82	0.73579	0.481
6-3/M82	1.09145	1
7-1/M82	0.86892	0.509
7-2/M82	1.12373	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.70784	0.243
IL2-6/WTpooled	1.09653	0.788
IL7-5/WTpooled	0.94867	1
IL7-3/WTpooled	1.13805	1
IL12-4/WTpooled	0.88159	0.71
IL1-4/WTpooled	1.24256	1
WT/WTpooled	0.9759	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	1.04353	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05619	0.921
DC3000/delta hrp 6h	0.92393	0.95
DC3000/delta hrp 12h	0.94105	1
DC3000/delta hrp 24h	1.05282	0.567

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.23533	0.556
DC3000 delta B/DC3000 delta AB	1.55817	0.096

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91229	1
Exp 36h	0.99506	1
Exp 60h	1.06816	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9986	1
Var 0h	0.91616	0.933
Var 12h I row2-row1	1.18568	0.506
Var 12h NI row2-row1	1.01026	1
Var 36h I row2-row1	1.0245	1
Var 36h NI row2-row1	1.00778	1
Var 60h I row2-row1	0.9133	0.439
Var 60h NI row2-row1	1.08564	1
Time course 0hI-0hNI	0.99332	1
Time course 12hI-12hNI	1.01647	0.811
Time course 36hI-36hNI	0.9325	0.211
Time course 60hI-60hNI	1.63255	0.009

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)	1.17995	0.261
transgenic ySAMdc/azygous control (breaker)	0.80752	0.173
transgenic ySAMdc/azygous control (red)	0.89915	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05191	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82286	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77958	1
Manapal/WT (break)	1.04921	1
Manapal/WT (red)	1.03336	1