Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.14.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04684	0.927
27DAP/17DAP	2.50186	0.364
39DAP/27DAP	1.51584	0.24
41DAP/39DAP	0.85016	0.524
42DAP/41DAP	1.10238	0.926
43DAP/42DAP	0.91704	0.865
47DAP/43DAP	1.06984	0.959
52DAP/47DAP	0.67229	0.331
57DAP/52DAP	1.02755	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09739	0.71
17DAP/reference	1.06681	0.492
27DAP/reference	1.06111	0.648
39DAP/reference	0.89911	0.247
41DAP/reference	0.85412	0.114
42DAP/reference	1.01883	1
43DAP/reference	0.99122	0.763
47DAP/reference	0.81188	0.023
52DAP/reference	0.70936	0.044
57DAP/reference	0.90232	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.3012	0.114
27DAP/17DAP	1.17432	0.573
39DAP/27DAP	1.36674	0.28
41DAP/39DAP	1.20558	0.817
42DAP/41DAP	0.96373	0.757
43DAP/42DAP	0.95374	0.774
47DAP/43DAP	1.04756	0.998
52DAP/47DAP	0.86667	0.18
57DAP/52DAP	0.82134	0.102
57DAP/7DAP	1.0597

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17761	0.129
17DAP/reference	1.48677	0.008
27DAP/reference	1.49271	0.008
39DAP/reference	1.50195	0.006
41DAP/reference	1.40454	0.021
42DAP/reference	1.08282	0.308
43DAP/reference	1.33509	0.014
47DAP/reference	0.97585	0.671
52DAP/reference	1.18974	0.159
57DAP/reference	1.16627	0.288

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25521	0.162
17DAP/reference	1.34138	0.531
27DAP/reference	1.18757	0.062
39DAP/reference	1.24564	0.686
41DAP/reference	1.05148	1
42DAP/reference	0.959	0.433
43DAP/reference	1.14673	0.647
47DAP/reference	1.03603	1
52DAP/reference	0.99114	0.619
57DAP/reference	1.03384	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.57857	0.015
17DAP/reference	1.14349	0.578
27DAP/reference	1.5157	0.022
39DAP/reference	1.40437	0.015
41DAP/reference	1.16603	0.637
42DAP/reference	1.41584	0.014
43DAP/reference	1.37387	0.547
47DAP/reference	0.88071	0.103
52DAP/reference	1.83799	0.088
57DAP/reference	1.06623	0.909

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14885	0.966
26DAP/20DAP	1.31104	0.173
34DAP/26DAP	0.88421	0.898
51DAP/34DAP	0.68467	0.213
52DAP/51DAP	0.92572	1
53DAP/52DAP	1.54308	0.738
55DAP/53DAP	0.85264	0.577
57DAP/55DAP	1.79623	0.559
62DAP/57DAP	0.98267	1
68DAP/62DAP	0.55772
68DAP/14DAP	0.47154	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95764	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.24848	0.058
Mature Green Tomato/Ripe Tomato	3.06003	0.015
Immature Eggplant/Mature Eggplant	1.63686	0.054
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.32941	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93839	0.934
1-1-2/M82	1.03771	1
12-2/M82	0.70266	0.955
12-4/M82	0.71604	0.33
1-3/M82	1.61411	0.277
2-1-1/M82	0.77806	0.565
2-1/M82	0.93081
2-6/M82	1.1964
3-2/M82	1.2449
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.04718	1
4-3/M82	1.14284
5-3/M82	1.05555	1
6-2/M82	1.29337	1
6-3/M82	0.99945	1
7-1/M82	1.11073	1
7-2/M82	1.53107	0.318
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.27725	0.277
IL2-6/WTpooled	1.31656	0.395
IL7-5/WTpooled	0.82913	1
IL7-3/WTpooled	0.77134	0.293
IL12-4/WTpooled	0.94286	1
IL1-4/WTpooled	1.04558	1
WT/WTpooled	1.02552	0.85

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	1.11061	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95623	1
DC3000/delta hrp 6h	0.98487	0.95
DC3000/delta hrp 12h	1.05874	1
DC3000/delta hrp 24h	1.07224	0.438

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.06081
DC3000 delta B/DC3000 delta AB	0.25121

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18087	1
Exp 36h	0.90972	0.539
Exp 60h	1.12763	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.1172	1
Var 0h	0.99152	1
Var 12h I row2-row1	1.49991	0.544
Var 12h NI row2-row1	1.2712	0.649
Var 36h I row2-row1	1.02284	1
Var 36h NI row2-row1	0.63423	0.852
Var 60h I row2-row1	1.01186	1
Var 60h NI row2-row1	0.99283	1
Time course 0hI-0hNI	0.92813	0.833
Time course 12hI-12hNI	0.97037	0.761
Time course 36hI-36hNI	0.88986	0.366
Time course 60hI-60hNI	1.0435	0.495

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)	1.00588	0.748
transgenic ySAMdc/azygous control (breaker)	1.22217	0.248
transgenic ySAMdc/azygous control (red)	1.2069	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08538	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.61385	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8852	1
Manapal/WT (break)	0.93509	1
Manapal/WT (red)	0.82208	0.199