Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.3.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.78952	0.042
27DAP/17DAP	1.10929	0.892
39DAP/27DAP	0.94593	0.663
41DAP/39DAP	1.35798	0.437
42DAP/41DAP	1.24258	0.737
43DAP/42DAP	1.407	0.327
47DAP/43DAP	0.45928	0.05
52DAP/47DAP	1.58899	0.493
57DAP/52DAP	0.71482	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03631	0.814
17DAP/reference	1.04992	0.117
27DAP/reference	0.98973	0.694
39DAP/reference	1.00543	0.871
41DAP/reference	1.00913	1
42DAP/reference	0.96509	0.218
43DAP/reference	1.01761	0.812
47DAP/reference	0.98691	0.473
52DAP/reference	0.95142	0.35
57DAP/reference	0.99423	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.56877	0.054
27DAP/17DAP	0.95791	0.887
39DAP/27DAP	0.79722	0.17
41DAP/39DAP	0.89899	0.729
42DAP/41DAP	0.65415	0.121
43DAP/42DAP	2.72045	0.147
47DAP/43DAP	1.00309	0.983
52DAP/47DAP	1.17972	0.969
57DAP/52DAP	1.32605	0.957
57DAP/7DAP	1.71148

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15534	0.197
17DAP/reference	1.23791	0.084
27DAP/reference	1.33754	0.246
39DAP/reference	1.13224	0.314
41DAP/reference	1.0768	0.767
42DAP/reference	1.15335	0.174
43DAP/reference	1.22644	0.035
47DAP/reference	1.14078	0.21
52DAP/reference	1.04271	0.832
57DAP/reference	1.00682	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92732	0.204
17DAP/reference	0.98012	0.576
27DAP/reference	1.08994	0.303
39DAP/reference	1.02438	1
41DAP/reference	0.97694	0.384
42DAP/reference	0.96158	0.237
43DAP/reference	0.91308	0.191
47DAP/reference	0.96146	0.246
52DAP/reference	1.03429	0.343
57DAP/reference	0.99909	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0778	0.758
17DAP/reference	1.10846	0.503
27DAP/reference	2.45234	0.248
39DAP/reference	1.11524	0.33
41DAP/reference	1.16527	0.156
42DAP/reference	1.13628	0.22
43DAP/reference	1.18389	0.09
47DAP/reference	0.91398	0.215
52DAP/reference	1.24641	0.398
57DAP/reference	1.1777	0.067

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99297	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.81601	0.819
51DAP/34DAP	0.94959	0.863
52DAP/51DAP	1.37009	0.783
53DAP/52DAP	1.09212	0.924
55DAP/53DAP	1.10989	0.79
57DAP/55DAP	1.21131	0.543
62DAP/57DAP	0.69867	0.016
68DAP/62DAP	0.87424	0.747
68DAP/14DAP	0.94776	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.85124	0.043

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.48321	0.058
Mature Green Tomato/Ripe Tomato	1.10167	1
Immature Eggplant/Mature Eggplant	0.91766	0.594
Ripe Pepper/Ripe Tomato	0.9323	1
Mature Eggplant/Ripe Tomato	0.86022	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.73615
12-2/M82	N/A	N/A
12-4/M82	0.93314	0.619
1-3/M82	0.55136
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.82576
3-2/M82	N/A	N/A
4-1-1/M82	0.94328
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.6527	0.447
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
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	1.09201	0.365
IL2-6/WTpooled	0.91239	1
IL7-5/WTpooled	0.85804	1
IL7-3/WTpooled	1.34449	0.362
IL12-4/WTpooled	1.00839	1
IL1-4/WTpooled	1.03734	1
WT/WTpooled	1.00256	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	1.1732	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12056	0.921
DC3000/delta hrp 6h	1.15976	0.631
DC3000/delta hrp 12h	1.0376	1
DC3000/delta hrp 24h	1.16587	0.221

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26757	0.134
DC3000 delta B/DC3000 delta AB	1.32684	0.117

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0519	1
Exp 36h	1.07678	1
Exp 60h	0.94763	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.99863	1
Var 12h I row2-row1	0.73547	0.363
Var 12h NI row2-row1	0.91522	0.82
Var 36h I row2-row1	1.52541	0.304
Var 36h NI row2-row1	1.27609	1
Var 60h I row2-row1	0.74031
Var 60h NI row2-row1	1.03838	1
Time course 0hI-0hNI	1.05138	0.867
Time course 12hI-12hNI	0.99164	0.994
Time course 36hI-36hNI	0.89072	0.352
Time course 60hI-60hNI	0.32407	0.006

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)	0.97799	0.722
transgenic ySAMdc/azygous control (breaker)	1.20464	0.248
transgenic ySAMdc/azygous control (red)	1.1249	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96829	0.168

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85622	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83365	1
Manapal/WT (break)	0.98052	1
Manapal/WT (red)	0.98084	0.863