Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.18.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2337	0.315
27DAP/17DAP	0.96917	0.956
39DAP/27DAP	0.91219	0.594
41DAP/39DAP	1.04562	0.929
42DAP/41DAP	1.08127	0.937
43DAP/42DAP	0.89343	0.799
47DAP/43DAP	0.8261	0.462
52DAP/47DAP	1.32134	0.702
57DAP/52DAP	1.24474	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03044	0.611
17DAP/reference	1.00543	1
27DAP/reference	0.92024	0.194
39DAP/reference	0.929	0.381
41DAP/reference	0.95219	0.434
42DAP/reference	0.95645	0.169
43DAP/reference	0.86675	0.107
47DAP/reference	0.92096	0.137
52DAP/reference	0.77725	0.055
57DAP/reference	0.89552	0.071

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.3426	0.247
27DAP/17DAP	1.0438	0.9
39DAP/27DAP	1.11914	0.314
41DAP/39DAP	0.96102	0.923
42DAP/41DAP	1.03869	0.907
43DAP/42DAP	1.06292	0.746
47DAP/43DAP	0.80845	0.325
52DAP/47DAP	1.28733	0.386
57DAP/52DAP	0.95135	0.673
57DAP/7DAP	1.27177

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09135	0.252
17DAP/reference	1.1361	0.525
27DAP/reference	1.05987	0.804
39DAP/reference	1.11178	0.391
41DAP/reference	1.34162	0.026
42DAP/reference	1.44273	0.021
43DAP/reference	1.30169	0.226
47DAP/reference	0.94629	0.504
52DAP/reference	1.26312	0.076
57DAP/reference	1.38259	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12863	0.11
17DAP/reference	1.06483	0.236
27DAP/reference	0.927	0.257
39DAP/reference	0.79697	0.01
41DAP/reference	0.85007	0.066
42DAP/reference	0.85353	0.061
43DAP/reference	0.87868	0.075
47DAP/reference	0.84652	0.024
52DAP/reference	0.79774	0.01
57DAP/reference	0.86497	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95193	0.489
17DAP/reference	1.13002	0.233
27DAP/reference	1.0837	0.408
39DAP/reference	1.2792	0.064
41DAP/reference	1.0236	1
42DAP/reference	1.09896	0.658
43DAP/reference	1.03076	0.827
47DAP/reference	0.71345	0.004
52DAP/reference	0.72473	0.098
57DAP/reference	0.72123	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07235	0.966
26DAP/20DAP	1.48225	0.499
34DAP/26DAP	0.65285	0.067
51DAP/34DAP	1.00485	0.967
52DAP/51DAP	1.2209	0.742
53DAP/52DAP	0.83631	0.663
55DAP/53DAP	1.05496	0.982
57DAP/55DAP	1.15221	0.955
62DAP/57DAP	1.03529	1
68DAP/62DAP	0.89109	0.722
68DAP/14DAP	0.88785	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91929	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.5859	0.058
Mature Green Tomato/Ripe Tomato	0.94811	0.611
Immature Eggplant/Mature Eggplant	0.38816	0.062
Ripe Pepper/Ripe Tomato	0.94914	1
Mature Eggplant/Ripe Tomato	1.94714	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12922	0.877
1-1-2/M82	1.04669	1
12-2/M82	1.10843	1
12-4/M82	1.23529
1-3/M82	1.00168	1
2-1-1/M82	0.84361	0.465
2-1/M82	1.04046	1
2-6/M82	1.29134
3-2/M82	0.80826
4-1-1/M82	1.01053	1
4-1/M82	1.55776
4-3-2/M82	N/A	N/A
4-3/M82	1.0937	1
5-3/M82	1.02852	0.572
6-2/M82	0.88846	1
6-3/M82	1.14421	1
7-1/M82	0.73837
7-2/M82	0.96171	0.599
9-3-2/M82	0.91073

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.94156	0.365
IL2-6/WTpooled	0.96627	1
IL7-5/WTpooled	0.74905	1
IL7-3/WTpooled	1.27411	1
IL12-4/WTpooled	1.20445	0.673
IL1-4/WTpooled	1.14036	1
WT/WTpooled	1.04326	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	0.75627	0.157

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97231	1
DC3000/delta hrp 6h	0.96488	0.95
DC3000/delta hrp 12h	0.95089	1
DC3000/delta hrp 24h	0.91178	0.403

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06195	1
Exp 36h	0.84501	0.699
Exp 60h	0.65192	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02456	1
Var 0h	1.01182	1
Var 12h I row2-row1	0.98694	1
Var 12h NI row2-row1	1.23434	1
Var 36h I row2-row1	0.81682	0.438
Var 36h NI row2-row1	1.05403	1
Var 60h I row2-row1	0.99812	1
Var 60h NI row2-row1	0.94861	0.977
Time course 0hI-0hNI	0.99416	1
Time course 12hI-12hNI	0.97999	0.746
Time course 36hI-36hNI	1.10861	0.248
Time course 60hI-60hNI	1.82831	0.022

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)	0.99756	0.931
transgenic ySAMdc/azygous control (breaker)	1.05061	1
transgenic ySAMdc/azygous control (red)	1.03859	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.86278	0.067

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.12605	0.223

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.13256	0.307
Manapal/WT (break)	0.81939	0.333
Manapal/WT (red)	0.94106	0.607