Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.8.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86651	0.26
27DAP/17DAP	1.13471	0.845
39DAP/27DAP	1.70286	0.116
41DAP/39DAP	0.84678	0.37
42DAP/41DAP	0.82175	0.774
43DAP/42DAP	1.1196	0.835
47DAP/43DAP	0.99818	0.92
52DAP/47DAP	1.22482	0.562
57DAP/52DAP	1.18493	0.904

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0127	0.707
17DAP/reference	1.21508	0.066
27DAP/reference	0.97022	0.642
39DAP/reference	1.07966	0.786
41DAP/reference	1.0535	0.855
42DAP/reference	0.93745	0.196
43DAP/reference	0.91517	0.259
47DAP/reference	1.05596	0.558
52DAP/reference	1.00983	1
57DAP/reference	0.97049	0.435

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00001	0.732
27DAP/17DAP	1.13379	0.636
39DAP/27DAP	1.11283	0.685
41DAP/39DAP	1.25139	1
42DAP/41DAP	1.3996	0.334
43DAP/42DAP	0.93732	0.597
47DAP/43DAP	1.0359	0.901
52DAP/47DAP	0.86925	0.254
57DAP/52DAP	1.14432	0.543
57DAP/7DAP	1.29353	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04418	0.876
17DAP/reference	1.15872	0.399
27DAP/reference	1.00053	0.698
39DAP/reference	1.09662	0.267
41DAP/reference	1.11976	0.593
42DAP/reference	1.19249	0.534
43DAP/reference	1.17554	0.537
47DAP/reference	1.20788	0.337
52DAP/reference	1.37188	0.076
57DAP/reference	1.10858	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9716	0.756
17DAP/reference	1.11407	0.496
27DAP/reference	1.10077	0.682
39DAP/reference	1.03478	1
41DAP/reference	1.0076	0.615
42DAP/reference	1.0422	0.915
43DAP/reference	1.15491	0.509
47DAP/reference	0.91731	0.24
52DAP/reference	1.02734	1
57DAP/reference	0.98833	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90617	0.214
17DAP/reference	1.05736	0.842
27DAP/reference	1.35318	0.057
39DAP/reference	1.19019	0.175
41DAP/reference	1.21064	0.369
42DAP/reference	1.24673	0.22
43DAP/reference	1.20997	0.452
47DAP/reference	0.77603	0.168
52DAP/reference	0.93019	0.505
57DAP/reference	0.92785	0.424

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.24681	0.966
26DAP/20DAP	1.34217	0.315
34DAP/26DAP	1.20886	1
51DAP/34DAP	1.77243	0.036
52DAP/51DAP	0.87347	1
53DAP/52DAP	1.66419	0.043
55DAP/53DAP	0.68587	0.021
57DAP/55DAP	0.77696	0.297
62DAP/57DAP	1.00961	1
68DAP/62DAP	1.12507	0.945
68DAP/14DAP	1.08866	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97477	0.607

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.73249	0.031
Immature Eggplant/Mature Eggplant	165.376	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	22.0825

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.11321	1
12-2/M82	N/A	N/A
12-4/M82	1.13314
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	0.85243
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.82342	1
4-3/M82	N/A	N/A
5-3/M82	0.91526	0.49
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	1.19124	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.15488
IL2-6/WTpooled	1.13644	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.12672	1
IL12-4/WTpooled	0.65615
IL1-4/WTpooled	1.31411	0.426
WT/WTpooled	0.91245	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	1.03106	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93207	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.93722	1
DC3000/delta hrp 24h	0.97176	0.808

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.33566	0.042
DC3000 delta B/DC3000 delta AB	1.53283	0.099

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	0.96856	1
Var 0h	0.76491	0.933
Var 12h I row2-row1	1.01697	0.473
Var 12h NI row2-row1	1.1308	0.649
Var 36h I row2-row1	1.08344	0.742
Var 36h NI row2-row1	1.00619	1
Var 60h I row2-row1	0.69881	0.285
Var 60h NI row2-row1	1.13483	0.904
Time course 0hI-0hNI	1.10698	0.719
Time course 12hI-12hNI	1.07731	0.647
Time course 36hI-36hNI	1.1401	0.114
Time course 60hI-60hNI	1.81547	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.07842	1
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93752	0.072

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.26356	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.05036	1