Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.13.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04692	0.904
27DAP/17DAP	1.02537	0.922
39DAP/27DAP	1.06268	0.804
41DAP/39DAP	1.18403	0.545
42DAP/41DAP	1.03885	1
43DAP/42DAP	1.03557	1
47DAP/43DAP	0.95914	0.825
52DAP/47DAP	1.01309	0.983
57DAP/52DAP	1.15018	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95396	0.402
17DAP/reference	1.06212	0.185
27DAP/reference	1.00544	0.925
39DAP/reference	1.05386	0.486
41DAP/reference	0.99676	1
42DAP/reference	0.98315	0.348
43DAP/reference	0.99646	0.904
47DAP/reference	0.95819	0.065
52DAP/reference	0.8595	0.099
57DAP/reference	0.99964	0.805

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98094	0.595
27DAP/17DAP	0.98626	0.782
39DAP/27DAP	1.01246	0.779
41DAP/39DAP	1.00816	0.887
42DAP/41DAP	0.98931	0.845
43DAP/42DAP	1.02235	0.413
47DAP/43DAP	0.98606	0.877
52DAP/47DAP	1.01611	0.939
57DAP/52DAP	0.98016	0.66
57DAP/7DAP	0.96678	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94056	0.071
17DAP/reference	0.97564	0.167
27DAP/reference	0.96373	0.066
39DAP/reference	0.96507	0.043
41DAP/reference	0.89303	0.016
42DAP/reference	0.92877	0.058
43DAP/reference	0.90745	0.095
47DAP/reference	0.91818	0.168
52DAP/reference	0.904	0.15
57DAP/reference	0.86987	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08434	0.531
17DAP/reference	0.95204	0.326
27DAP/reference	0.84635	0.044
39DAP/reference	0.85425	0.089
41DAP/reference	0.92574	0.188
42DAP/reference	0.98062	0.482
43DAP/reference	1.02265	0.673
47DAP/reference	1.0425	0.366
52DAP/reference	0.95037	0.203
57DAP/reference	0.96665	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93412	0.112
17DAP/reference	0.98776	0.668
27DAP/reference	1.05257	0.216
39DAP/reference	1.07954	0.053
41DAP/reference	0.97833	0.371
42DAP/reference	0.99748	1
43DAP/reference	1.01909	0.867
47DAP/reference	1.00545	1
52DAP/reference	0.98552	0.781
57DAP/reference	0.82763	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99929	1
26DAP/20DAP	1.01164	1
34DAP/26DAP	0.98403	0.936
51DAP/34DAP	1.00555	0.988
52DAP/51DAP	0.99734	1
53DAP/52DAP	0.96727	0.83
55DAP/53DAP	0.96977	0.389
57DAP/55DAP	0.99007	0.902
62DAP/57DAP	1.00735	1
68DAP/62DAP	1.08844	0.754
68DAP/14DAP	1.12374	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98859	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97853	0.745
Mature Green Tomato/Ripe Tomato	0.9989	0.898
Immature Eggplant/Mature Eggplant	1.15516	0.278
Ripe Pepper/Ripe Tomato	1.01204	1
Mature Eggplant/Ripe Tomato	1.16677	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97682	0.961
1-1-2/M82	1.01234	1
12-2/M82	1.00165	1
12-4/M82	0.99534	1
1-3/M82	0.97417	0.378
2-1-1/M82	1.02705	1
2-1/M82	1.29965	0.345
2-6/M82	0.96967	1
3-2/M82	0.95463	1
4-1-1/M82	1.12981	1
4-1/M82	1.06632	0.853
4-3-2/M82	0.8535	0.698
4-3/M82	1.05028	1
5-3/M82	1.05336	1
6-2/M82	0.99627	1
6-3/M82	1.00533	1
7-1/M82	1.03923	0.741
7-2/M82	0.98033	1
9-3-2/M82	1.00216	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.75733	0.247
IL2-6/WTpooled	1.15967	0.584
IL7-5/WTpooled	0.91441	1
IL7-3/WTpooled	1.10853	1
IL12-4/WTpooled	1.27379	0.695
IL1-4/WTpooled	0.90797	0.834
WT/WTpooled	1.03322	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	1.04116	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97358	1
DC3000/delta hrp 6h	1.26095	1
DC3000/delta hrp 12h	1.01146	1
DC3000/delta hrp 24h	1.02901	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15229	0.052
DC3000 delta B/DC3000 delta AB	1.12165	0.308

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02091	1
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96855	1
Var 0h	0.82201	1
Var 12h I row2-row1	1.15796	0.204
Var 12h NI row2-row1	1.04871	1
Var 36h I row2-row1	1.00311	1
Var 36h NI row2-row1	0.97376	0.743
Var 60h I row2-row1	1.08496	1
Var 60h NI row2-row1	1.01459	1
Time course 0hI-0hNI	1.05607	0.852
Time course 12hI-12hNI	1.05484	0.788
Time course 36hI-36hNI	1.12302	0.128
Time course 60hI-60hNI	1.34799	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)	0.9927	0.862
transgenic ySAMdc/azygous control (breaker)	0.99754	1
transgenic ySAMdc/azygous control (red)	1.11935	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95368	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13852	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.58389	0.172
Manapal/WT (break)	0.93418	1
Manapal/WT (red)	1.3544	0.222