Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.17.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2352	0.932
27DAP/17DAP	1.39226	0.804
39DAP/27DAP	1.5525	0.275
41DAP/39DAP	1.52217	0.494
42DAP/41DAP	1.88382	0.14
43DAP/42DAP	0.81405	0.743
47DAP/43DAP	1.272	0.542
52DAP/47DAP	0.6903	0.256
57DAP/52DAP	1.5914	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02134	0.844
17DAP/reference	1.17369	0.696
27DAP/reference	1.10783	0.623
39DAP/reference	1.16481	0.326
41DAP/reference	1.2877	0.05
42DAP/reference	1.13409	0.431
43DAP/reference	1.37461	0.133
47DAP/reference	1.11736	0.666
52DAP/reference	1.36063	0.371
57DAP/reference	1.13104	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34008	0.642
27DAP/17DAP	0.97795	0.919
39DAP/27DAP	2.20541	0.023
41DAP/39DAP	0.49638	0.021
42DAP/41DAP	1.59918	0.002
43DAP/42DAP	1.82476	0.025
47DAP/43DAP	0.99169	0.947
52DAP/47DAP	0.65192	0.052
57DAP/52DAP	0.62354	0.067
57DAP/7DAP	0.74277

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.66097	0.069
17DAP/reference	0.66282	0.011
27DAP/reference	0.83235	0.055
39DAP/reference	1.00291	0.745
41DAP/reference	0.83085	0.194
42DAP/reference	1.25144	0.233
43DAP/reference	1.19231	0.063
47DAP/reference	1.23497	0.549
52DAP/reference	1.04408	0.636
57DAP/reference	0.83899	0.08

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59599	0.006
17DAP/reference	0.63627	0.007
27DAP/reference	0.7026	0.1
39DAP/reference	0.94208	0.404
41DAP/reference	0.83961	0.133
42DAP/reference	0.716	0.037
43DAP/reference	1.01281	1
47DAP/reference	0.90989	0.184
52DAP/reference	0.78426	0.072
57DAP/reference	0.75887	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78516	0.214
17DAP/reference	0.75448	0.139
27DAP/reference	0.85707	0.155
39DAP/reference	1.19507	0.151
41DAP/reference	1.18805	0.222
42DAP/reference	1.42614	0.011
43DAP/reference	1.49824	0.013
47DAP/reference	0.95297	0.538
52DAP/reference	1.05785	0.826
57DAP/reference	0.75027	0.315

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.84696	1
26DAP/20DAP	1.00695	1
34DAP/26DAP	0.91524	0.92
51DAP/34DAP	1.04438
52DAP/51DAP	1.25619	0.556
53DAP/52DAP	0.92882	0.803
55DAP/53DAP	0.59771
57DAP/55DAP	1.08106	0.915
62DAP/57DAP	1.08688	1
68DAP/62DAP	0.97941
68DAP/14DAP	4.10679	0.017

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	11.4171	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.00729	0.774
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.07855
12-2/M82	N/A	N/A
12-4/M82	3.12835
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	4.64312
4-3-2/M82	0.93908	1
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.37481
7-2/M82	N/A	N/A
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	0.70748
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.35816	0.362
IL12-4/WTpooled	1.22029	0.557
IL1-4/WTpooled	1.06931	0.426
WT/WTpooled	1.21597	0.713

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	0.96184

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.12943	1
DC3000/delta hrp 24h	0.97971

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.72387
DC3000 delta B/DC3000 delta AB	0.31707

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
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	0.97087
Var 0h	1.08651	0.98
Var 12h I row2-row1	0.84965	0.235
Var 12h NI row2-row1	1.03598	1
Var 36h I row2-row1	1.57648	1
Var 36h NI row2-row1	0.73487	1
Var 60h I row2-row1	0.91791
Var 60h NI row2-row1	0.55622	1
Time course 0hI-0hNI	0.94549	0.791
Time course 12hI-12hNI	1.12246	0.816
Time course 36hI-36hNI	0.94536	0.468
Time course 60hI-60hNI	1.06103	0.646

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	1.20142	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.34715	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99506	1
Manapal/WT (break)	0.85804	1
Manapal/WT (red)	0.94812	0.607