Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.2.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.74548	0.413
27DAP/17DAP	0.78088	0.674
39DAP/27DAP	0.8275	0.487
41DAP/39DAP	1.05628	0.921
42DAP/41DAP	0.93841	1
43DAP/42DAP	0.99515	0.934
47DAP/43DAP	1.71549	0.42
52DAP/47DAP	1.55577	0.496
57DAP/52DAP	1.1323	0.958

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1239	0.132
17DAP/reference	1.1932	0.014
27DAP/reference	0.92367	0.286
39DAP/reference	1.03325	0.524
41DAP/reference	1.05324	0.855
42DAP/reference	0.92515	0.088
43DAP/reference	1.22948	0.033
47DAP/reference	0.99978	0.674
52DAP/reference	0.86021	0.167
57DAP/reference	0.82613	0.199

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1246	0.605
27DAP/17DAP	1.2352	0.694
39DAP/27DAP	0.92961	0.737
41DAP/39DAP	1.31237	0.407
42DAP/41DAP	0.78495	0.197
43DAP/42DAP	1.15196	0.513
47DAP/43DAP	1.26162	0.276
52DAP/47DAP	1.22435	0.492
57DAP/52DAP	1.28378	0.574
57DAP/7DAP	1.55969	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16424	0.241
17DAP/reference	1.33869	0.032
27DAP/reference	1.04209	0.664
39DAP/reference	1.08369	0.511
41DAP/reference	1.16843	0.251
42DAP/reference	1.17453	0.405
43DAP/reference	1.05851	0.603
47DAP/reference	0.82447	0.066
52DAP/reference	1.16731	0.459
57DAP/reference	1.13008	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19554	0.051
17DAP/reference	1.02825	1
27DAP/reference	0.82604	0.047
39DAP/reference	0.91344	0.281
41DAP/reference	0.75043	0.027
42DAP/reference	0.79955	0.012
43DAP/reference	1.05682	0.865
47DAP/reference	0.88948	0.141
52DAP/reference	1.2856	0.938
57DAP/reference	1.16594	0.221

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28012	0.059
17DAP/reference	1.12548	0.456
27DAP/reference	1.22766	0.02
39DAP/reference	1.18178	0.041
41DAP/reference	0.87968	0.293
42DAP/reference	0.95757	0.671
43DAP/reference	0.96953	0.545
47DAP/reference	1.09146	0.294
52DAP/reference	1.17517	0.295
57DAP/reference	0.85957	0.061

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1318	0.966
26DAP/20DAP	1.87294	0.099
34DAP/26DAP	0.48933	0.076
51DAP/34DAP	1.18723	0.795
52DAP/51DAP	0.82134	1
53DAP/52DAP	0.98071	0.811
55DAP/53DAP	1.06412	0.885
57DAP/55DAP	1.0978	1
62DAP/57DAP	0.71512	0.05
68DAP/62DAP	0.99175	0.885
68DAP/14DAP	0.92042	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.44817	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.16279	0.06
Mature Green Tomato/Ripe Tomato	0.88934	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	40.3523	0.258
Mature Eggplant/Ripe Tomato	N/A	N/A

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	N/A	N/A
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.0405	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.50747	0.298
IL12-4/WTpooled	0.82627	0.71
IL1-4/WTpooled	0.88395
WT/WTpooled	1.02084	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	1.00088	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.21899	0.774
DC3000/delta hrp 6h	1.08213	1
DC3000/delta hrp 12h	0.97404	1
DC3000/delta hrp 24h	1.07635	0.336

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	0.5273	0.073

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.17443	1
Exp 36h	0.96478	0.943
Exp 60h	0.82452	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.14565	1
Var 12h I row2-row1	0.87489	0.418
Var 12h NI row2-row1	1.4098	1
Var 36h I row2-row1	0.98403	1
Var 36h NI row2-row1	0.91494
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	0.77558	0.28
Time course 12hI-12hNI	0.93844	0.739
Time course 36hI-36hNI	1.07369	0.28
Time course 60hI-60hNI	0.52566	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)	1.10604	0.482
transgenic ySAMdc/azygous control (breaker)	1.28434	1
transgenic ySAMdc/azygous control (red)	1.10107	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03204	0.194

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.65519	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.28339	0.14
Manapal/WT (break)	1.41195	0.381
Manapal/WT (red)	N/A	N/A