Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.1.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85445	0.357
27DAP/17DAP	0.89382	0.754
39DAP/27DAP	0.85024	0.353
41DAP/39DAP	1.29775	0.376
42DAP/41DAP	1.03525	1
43DAP/42DAP	0.92009	0.829
47DAP/43DAP	0.84432	0.522
52DAP/47DAP	1.63426	0.23
57DAP/52DAP	0.86996	0.81

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93212	0.205
17DAP/reference	1.05827	0.154
27DAP/reference	1.10942	0.125
39DAP/reference	1.0664	0.077
41DAP/reference	1.13111	0.05
42DAP/reference	0.92032	0.03
43DAP/reference	0.96905	0.5
47DAP/reference	0.95699	0.098
52DAP/reference	1.01127	1
57DAP/reference	1.0493	0.744

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03194	0.708
27DAP/17DAP	1.01031	1
39DAP/27DAP	0.9655	0.54
41DAP/39DAP	0.98885	1
42DAP/41DAP	1.0761	0.343
43DAP/42DAP	1.07309	0.23
47DAP/43DAP	1.014	0.956
52DAP/47DAP	1.02045	0.939
57DAP/52DAP	0.99798	0.869
57DAP/7DAP	1.09971	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85225	0.063
17DAP/reference	0.88778	0.013
27DAP/reference	0.84612	0.011
39DAP/reference	0.91928	0.015
41DAP/reference	0.90403	0.022
42DAP/reference	0.8762	0.014
43DAP/reference	0.83359	0.022
47DAP/reference	0.85762	0.05
52DAP/reference	0.84604	0.012
57DAP/reference	0.88319	0.054

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98655	0.77
17DAP/reference	1.01656	0.839
27DAP/reference	1.06785	0.412
39DAP/reference	1.00804	0.722
41DAP/reference	0.98056	0.451
42DAP/reference	0.92265	0.037
43DAP/reference	0.97902	0.633
47DAP/reference	0.9631	0.232
52DAP/reference	1.13706	0.006
57DAP/reference	1.03122	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8992	0.077
17DAP/reference	0.986	0.709
27DAP/reference	0.90104	0.029
39DAP/reference	0.93378	0.035
41DAP/reference	0.93959	0.064
42DAP/reference	0.88259	0.014
43DAP/reference	0.90846	0.057
47DAP/reference	0.93908	0.183
52DAP/reference	0.83535	0.174
57DAP/reference	0.96164	0.424

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99763	1
26DAP/20DAP	0.95279	1
34DAP/26DAP	0.99824	1
51DAP/34DAP	1.11732	0.496
52DAP/51DAP	1.05696	0.722
53DAP/52DAP	1.03094	0.901
55DAP/53DAP	1.05342	0.991
57DAP/55DAP	1.0796	0.779
62DAP/57DAP	0.99049	1
68DAP/62DAP	0.97026	0.863
68DAP/14DAP	0.82876	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.21975	0.14

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.15901	0.908
Mature Green Tomato/Ripe Tomato	0.95499	0.569
Immature Eggplant/Mature Eggplant	0.87301	0.197
Ripe Pepper/Ripe Tomato	0.44642	0.293
Mature Eggplant/Ripe Tomato	1.2443	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06716	1
1-1-2/M82	1.04294	1
12-2/M82	1.29538	0.519
12-4/M82	0.97777	1
1-3/M82	0.93033	0.501
2-1-1/M82	1.08179
2-1/M82	0.68717
2-6/M82	1.05461	0.695
3-2/M82	0.97158	1
4-1-1/M82	0.88417	0.907
4-1/M82	0.63175	1
4-3-2/M82	0.75703	0.487
4-3/M82	0.9134	1
5-3/M82	1.01556	0.572
6-2/M82	0.85407
6-3/M82	1.07344
7-1/M82	1.18421
7-2/M82	1.16323	1
9-3-2/M82	0.98548	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.74681
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.43959
IL12-4/WTpooled	1.02239	1
IL1-4/WTpooled	1.20547	1
WT/WTpooled	0.96746	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	1.11628	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06321	0.692
DC3000/delta hrp 6h	1.00557	0.95
DC3000/delta hrp 12h	1.03034	1
DC3000/delta hrp 24h	1.02144	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17769	0.094
DC3000 delta B/DC3000 delta AB	1.11524	0.296

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97013	1
Exp 36h	0.9911	1
Exp 60h	1.00367	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97624	1
Var 0h	0.85229	0.933
Var 12h I row2-row1	1.14287	0.222
Var 12h NI row2-row1	0.95595	0.488
Var 36h I row2-row1	0.91925	0.805
Var 36h NI row2-row1	1.1407	1
Var 60h I row2-row1	1.1379	1
Var 60h NI row2-row1	1.15938	0.904
Time course 0hI-0hNI	0.98506	0.97
Time course 12hI-12hNI	0.99915	1
Time course 36hI-36hNI	1.05555	0.651
Time course 60hI-60hNI	1.16999	0.047

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)	0.99951	1
transgenic ySAMdc/azygous control (breaker)	0.73567	0.142
transgenic ySAMdc/azygous control (red)	0.9156	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01273	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.009	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75892	0.172
Manapal/WT (break)	1.02728	1
Manapal/WT (red)	0.89829	0.36