Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.19.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14284	0.512
27DAP/17DAP	1.18394	0.828
39DAP/27DAP	0.86317	0.608
41DAP/39DAP	1.09409	0.929
42DAP/41DAP	1.09817	1
43DAP/42DAP	1.00173	0.937
47DAP/43DAP	1.12466	0.733
52DAP/47DAP	1.01269	0.851
57DAP/52DAP	1.10411	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02056	0.9
17DAP/reference	0.98268	0.737
27DAP/reference	1.01935	0.696
39DAP/reference	0.96212	0.261
41DAP/reference	1.0399	0.516
42DAP/reference	0.97721	0.295
43DAP/reference	0.97555	0.555
47DAP/reference	0.99368	0.568
52DAP/reference	1.02161	1
57DAP/reference	0.87562	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9714	0.629
27DAP/17DAP	0.99902	1
39DAP/27DAP	1.06061	0.558
41DAP/39DAP	1.02836	0.909
42DAP/41DAP	1.0679	0.81
43DAP/42DAP	1.09426	0.192
47DAP/43DAP	1.03746	0.837
52DAP/47DAP	0.92569	0.446
57DAP/52DAP	0.99596	0.869
57DAP/7DAP	1.01264	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91786	0.168
17DAP/reference	0.91015	0.039
27DAP/reference	0.85772	0.012
39DAP/reference	0.9383	0.015
41DAP/reference	0.93065	0.039
42DAP/reference	0.91845	0.012
43DAP/reference	0.90299	0.018
47DAP/reference	0.8833	0.05
52DAP/reference	0.86209	0.046
57DAP/reference	0.85152	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05876	0.397
17DAP/reference	0.96903	0.447
27DAP/reference	0.92317	0.212
39DAP/reference	0.92335	0.06
41DAP/reference	0.80897	0.017
42DAP/reference	0.86412	0.014
43DAP/reference	0.96062	0.459
47DAP/reference	0.87794	0.035
52DAP/reference	0.96769	0.156
57DAP/reference	1.07594	0.236

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92543	0.112
17DAP/reference	0.95526	0.389
27DAP/reference	0.92743	0.065
39DAP/reference	0.9252	0.01
41DAP/reference	0.93872	0.185
42DAP/reference	0.84685	0.087
43DAP/reference	0.88282	0.088
47DAP/reference	0.90715	0.174
52DAP/reference	0.87483	0.123
57DAP/reference	0.68947	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95069	1
26DAP/20DAP	0.94389	1
34DAP/26DAP	0.9944	1
51DAP/34DAP	1.09753	0.416
52DAP/51DAP	1.16604	0.126
53DAP/52DAP	0.96625	0.835
55DAP/53DAP	1.13009	0.348
57DAP/55DAP	0.97302	0.845
62DAP/57DAP	0.9607	0.871
68DAP/62DAP	0.7595	0.144
68DAP/14DAP	0.95508	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78252	0.079

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.4786
Mature Green Tomato/Ripe Tomato	0.96328	0.715
Immature Eggplant/Mature Eggplant	0.93344
Ripe Pepper/Ripe Tomato	5.50634
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93344	0.841
1-1-2/M82	0.87643
12-2/M82	0.88936	0.955
12-4/M82	1.31147
1-3/M82	0.77449	0.378
2-1-1/M82	1.2848	0.296
2-1/M82	1.03871
2-6/M82	1.35147	0.329
3-2/M82	0.97747
4-1-1/M82	1.0069	1
4-1/M82	0.95883
4-3-2/M82	1.05968
4-3/M82	1.00229	1
5-3/M82	0.8911	0.49
6-2/M82	0.93667	1
6-3/M82	1.20732	1
7-1/M82	0.99011
7-2/M82	1.0828	1
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	1.17046	0.46
IL7-5/WTpooled	1.57691
IL7-3/WTpooled	1.03647	1
IL12-4/WTpooled	1.16998	0.646
IL1-4/WTpooled	0.91858	0.834
WT/WTpooled	0.95637	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	1.15941	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99783	1
DC3000/delta hrp 6h	1.22768	1
DC3000/delta hrp 12h	1.01678	1
DC3000/delta hrp 24h	0.9895	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1467	0.042
DC3000 delta B/DC3000 delta AB	1.00091	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.15147	1
Exp 36h	1.99699	1
Exp 60h	1.5688	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97159	1
Var 0h	0.76887	0.457
Var 12h I row2-row1	1.09501	0.263
Var 12h NI row2-row1	0.86502	0.494
Var 36h I row2-row1	0.97552	1
Var 36h NI row2-row1	1.00899	1
Var 60h I row2-row1	1.06927	1
Var 60h NI row2-row1	1.20057	0.904
Time course 0hI-0hNI	1.12246	0.603
Time course 12hI-12hNI	1.02944	0.746
Time course 36hI-36hNI	1.13746	0.07
Time course 60hI-60hNI	1.43101	0.008

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)	0.94848	0.409
transgenic ySAMdc/azygous control (breaker)	0.99059	1
transgenic ySAMdc/azygous control (red)	0.96811	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98288	0.534

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97937	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.25671	0.307
Manapal/WT (break)	1.26176	0.183
Manapal/WT (red)	0.88757	0.242