Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.11.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32731	0.656
27DAP/17DAP	1.21079	0.847
39DAP/27DAP	0.8957	0.608
41DAP/39DAP	2.29653	0.323
42DAP/41DAP	0.91737	1
43DAP/42DAP	1.0903	1
47DAP/43DAP	0.97932	0.864
52DAP/47DAP	1.07792	0.973
57DAP/52DAP	0.81851	0.745

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70979	0.024
17DAP/reference	0.75484	0.031
27DAP/reference	0.80226	0.04
39DAP/reference	0.9464	0.437
41DAP/reference	0.84286	0.049
42DAP/reference	0.86758	0.085
43DAP/reference	0.92069	0.394
47DAP/reference	0.78881	0.002
52DAP/reference	1.07176	0.371
57DAP/reference	0.98567	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99977	0.899
27DAP/17DAP	0.96218	0.878
39DAP/27DAP	1.04912	0.659
41DAP/39DAP	1.05149	1
42DAP/41DAP	1.00894	0.91
43DAP/42DAP	0.9636	0.751
47DAP/43DAP	1.02862	0.93
52DAP/47DAP	1.03713	0.9
57DAP/52DAP	0.89513	0.524
57DAP/7DAP	0.88966	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3478	0.034
17DAP/reference	1.06036	0.477
27DAP/reference	0.93482	0.058
39DAP/reference	1.14415	0.141
41DAP/reference	0.9937	0.677
42DAP/reference	1.13776	0.308
43DAP/reference	1.26496	0.148
47DAP/reference	1.17275	0.44
52DAP/reference	1.34202	0.009
57DAP/reference	1.30051	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89461	0.296
17DAP/reference	0.74521	0.006
27DAP/reference	1.09206	1
39DAP/reference	0.92456	0.33
41DAP/reference	0.90212	0.242
42DAP/reference	1.22256	0.185
43DAP/reference	0.84284	0.066
47DAP/reference	1.02739	1
52DAP/reference	0.74328	0.02
57DAP/reference	0.8456	0.125

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91422	0.158
17DAP/reference	0.91774	0.328
27DAP/reference	1.02123	0.967
39DAP/reference	0.96518	0.464
41DAP/reference	1.03948	0.961
42DAP/reference	0.87765	0.087
43DAP/reference	1.09253	0.655
47DAP/reference	0.86749	0.224
52DAP/reference	1.14366	0.509
57DAP/reference	0.99506	0.672

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.30853	0.966
26DAP/20DAP	0.91407	1
34DAP/26DAP	1.2315	1
51DAP/34DAP	0.873	0.508
52DAP/51DAP	1.0742	0.626
53DAP/52DAP	0.95607	0.772
55DAP/53DAP	1.08288	0.798
57DAP/55DAP	1.07988	0.745
62DAP/57DAP	1.1001	0.767
68DAP/62DAP	0.75021	0.263
68DAP/14DAP	0.94617

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.18517	0.072

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.42896	0.666
Mature Green Tomato/Ripe Tomato	1.54501	0.149
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.94762	1
Mature Eggplant/Ripe Tomato	0.29778	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.07492	1
12-2/M82	N/A	N/A
12-4/M82	0.68013	0.282
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	0.83228
4-1-1/M82	1.91667
4-1/M82	1.21627
4-3-2/M82	1.14584
4-3/M82	1.8228	0.268
5-3/M82	1.09145	1
6-2/M82	N/A	N/A
6-3/M82	1.04976	1
7-1/M82	0.89778
7-2/M82	N/A	N/A
9-3-2/M82	0.63727

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85094	0.243
IL2-6/WTpooled	0.98474	1
IL7-5/WTpooled	1.28513	0.792
IL7-3/WTpooled	0.93166	1
IL12-4/WTpooled	0.92623	1
IL1-4/WTpooled	1.06305	1
WT/WTpooled	0.90322	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	1.19641	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12953	0.894
DC3000/delta hrp 6h	0.98231	0.95
DC3000/delta hrp 12h	1.11226	1
DC3000/delta hrp 24h	0.72875	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99056	1
DC3000 delta B/DC3000 delta AB	1.0028	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08621	1
Exp 36h	1.2348	0.693
Exp 60h	1.00882	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99993	1
Var 0h	0.42988	0.291
Var 12h I row2-row1	0.94431	0.77
Var 12h NI row2-row1	0.89515	0.466
Var 36h I row2-row1	1.03806	1
Var 36h NI row2-row1	0.84385	0.584
Var 60h I row2-row1	1.05494	0.562
Var 60h NI row2-row1	0.92754	0.63
Time course 0hI-0hNI	1.04796	0.852
Time course 12hI-12hNI	1.08344	0.703
Time course 36hI-36hNI	1.01354	0.718
Time course 60hI-60hNI	1.04182	0.216

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)	1.10727	0.748
transgenic ySAMdc/azygous control (breaker)	0.97885	1
transgenic ySAMdc/azygous control (red)	0.91463	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99868	0.911

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79084	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.63402	1
Manapal/WT (break)	1.53866	1
Manapal/WT (red)	1.00282	1