Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.1.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68153	0.067
27DAP/17DAP	0.93123	0.754
39DAP/27DAP	1.42677	0.148
41DAP/39DAP	0.62465	0.054
42DAP/41DAP	1.02206	1
43DAP/42DAP	1.29766	0.491
47DAP/43DAP	0.53633	0.054
52DAP/47DAP	1.52263	0.274
57DAP/52DAP	1.10069	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38109	0.014
17DAP/reference	0.9895	0.737
27DAP/reference	0.75091	0.013
39DAP/reference	0.76813	0.027
41DAP/reference	0.81936	0.039
42DAP/reference	1.01446	0.755
43DAP/reference	0.9083	0.058
47DAP/reference	0.82791	0.003
52DAP/reference	0.64584	0.013
57DAP/reference	0.70273	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81021	0.066
27DAP/17DAP	1.07441	0.798
39DAP/27DAP	0.77414	0.045
41DAP/39DAP	1.18809	1
42DAP/41DAP	1.14085	0.663
43DAP/42DAP	0.86261	0.024
47DAP/43DAP	0.94005	0.637
52DAP/47DAP	0.55509	0.048
57DAP/52DAP	0.82721	0.395
57DAP/7DAP	0.2858	0.181

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	3.51929	0.024
17DAP/reference	2.42763	0.006
27DAP/reference	1.64276	0.015
39DAP/reference	1.19857	0.008
41DAP/reference	1.72264	0.008
42DAP/reference	1.74159	0.009
43DAP/reference	1.43794	0.008
47DAP/reference	1.20054	0.093
52DAP/reference	1.3391	0.086
57DAP/reference	1.02575	0.748

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14045	0.484
17DAP/reference	1.24313	0.117
27DAP/reference	1.53228	0.023
39DAP/reference	1.16349	0.502
41DAP/reference	1.33249	0.012
42DAP/reference	1.40454	0.094
43DAP/reference	0.80508	0.135
47DAP/reference	1.0072	0.678
52DAP/reference	0.74144	0.004
57DAP/reference	0.80371	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.47592	0.018
17DAP/reference	1.63091	0.221
27DAP/reference	1.64957	0.016
39DAP/reference	1.56853	0.017
41DAP/reference	1.14904	0.249
42DAP/reference	1.18435	0.22
43DAP/reference	1.30407	0.081
47DAP/reference	0.56123	0.004
52DAP/reference	1.01186	0.908
57DAP/reference	0.94512	0.416

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90793	1
26DAP/20DAP	1.55561	0.322
34DAP/26DAP	0.67833	0.144
51DAP/34DAP	0.86561	0.688
52DAP/51DAP	1.30665	0.358
53DAP/52DAP	0.81575	0.153
55DAP/53DAP	0.95266	0.709
57DAP/55DAP	1.00948	0.921
62DAP/57DAP	1.88265	0.833
68DAP/62DAP	0.74419	0.668
68DAP/14DAP	1.11607	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.89151	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.96569	0.71
Mature Green Tomato/Ripe Tomato	1.68996	0.119
Immature Eggplant/Mature Eggplant	0.82857	0.063
Ripe Pepper/Ripe Tomato	1.36569	1
Mature Eggplant/Ripe Tomato	1.35523	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98003	0.944
1-1-2/M82	1.41787	1
12-2/M82	0.86971	0.955
12-4/M82	1.04689	1
1-3/M82	1.5129	0.26
2-1-1/M82	1.17691	0.764
2-1/M82	0.80106
2-6/M82	1.201	0.505
3-2/M82	1.17517	0.84
4-1-1/M82	1.46783	1
4-1/M82	1.35318	1
4-3-2/M82	2.03902	0.225
4-3/M82	1.50583	0.268
5-3/M82	1.31662	0.572
6-2/M82	2.39746	0.253
6-3/M82	0.74086
7-1/M82	1.12328
7-2/M82	1.67741	0.291
9-3-2/M82	1.52939	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.71741	0.243
IL2-6/WTpooled	1.3037	0.46
IL7-5/WTpooled	0.89599	1
IL7-3/WTpooled	0.78021	0.418
IL12-4/WTpooled	1.07221	0.673
IL1-4/WTpooled	0.98981	1
WT/WTpooled	1.06056	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	1.01569	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99565	1
DC3000/delta hrp 6h	1.27021	0.857
DC3000/delta hrp 12h	1.63288	1
DC3000/delta hrp 24h	1.17415	0.232

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.62337	0.042
DC3000 delta B/DC3000 delta AB	1.5052	0.085

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.41496	1
Exp 36h	1.25529	1
Exp 60h	1.72824	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98255	1
Var 0h	0.50417	0.933
Var 12h I row2-row1	0.9825	1
Var 12h NI row2-row1	1.14887	0.649
Var 36h I row2-row1	1.19896	0.601
Var 36h NI row2-row1	0.90883	0.522
Var 60h I row2-row1	0.70451	0.287
Var 60h NI row2-row1	0.80459	0.756
Time course 0hI-0hNI	1.06376	0.833
Time course 12hI-12hNI	1.042	0.849
Time course 36hI-36hNI	1.35444	0.013
Time course 60hI-60hNI	3.24577	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)	1.13732	0.654
transgenic ySAMdc/azygous control (breaker)	1.21679	1
transgenic ySAMdc/azygous control (red)	1.2338	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.37226	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.74388	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.20808	0.307
Manapal/WT (break)	1.03567	1
Manapal/WT (red)	0.88081	0.274