Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.4.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31882	0.264
27DAP/17DAP	0.77982	0.522
39DAP/27DAP	0.94442	0.663
41DAP/39DAP	0.962	0.646
42DAP/41DAP	0.9904	1
43DAP/42DAP	0.98026	0.925
47DAP/43DAP	1.17241	0.793
52DAP/47DAP	0.93367	0.781
57DAP/52DAP	1.28668	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84402	0.109
17DAP/reference	0.95382	0.342
27DAP/reference	1.02203	0.966
39DAP/reference	1.10973	0.545
41DAP/reference	0.89378	0.114
42DAP/reference	0.8901	0.025
43DAP/reference	0.9547	0.302
47DAP/reference	1.00744	1
52DAP/reference	0.95177	0.35
57DAP/reference	0.99518	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05367	0.728
27DAP/17DAP	0.97856	0.887
39DAP/27DAP	0.7774	0.204
41DAP/39DAP	0.95673	0.923
42DAP/41DAP	1.06417	0.753
43DAP/42DAP	0.95799	0.618
47DAP/43DAP	0.93833	0.588
52DAP/47DAP	1.00156	0.93
57DAP/52DAP	0.98001	0.756
57DAP/7DAP	1.81796	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21615	0.218
17DAP/reference	1.19943	0.028
27DAP/reference	1.36008	0.02
39DAP/reference	1.29681	0.021
41DAP/reference	1.0811	0.949
42DAP/reference	1.33676	0.021
43DAP/reference	1.14442	0.2
47DAP/reference	1.05732	0.761
52DAP/reference	0.99842	0.679
57DAP/reference	1.05389	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04411	0.943
17DAP/reference	0.88506	0.239
27DAP/reference	0.8682	0.067
39DAP/reference	1.03165	0.848
41DAP/reference	0.86426	0.1
42DAP/reference	0.77531	0.019
43DAP/reference	0.8645	0.196
47DAP/reference	0.81886	0.02
52DAP/reference	0.94948	0.351
57DAP/reference	1.02527	0.957

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11282	0.32
17DAP/reference	0.90402	0.322
27DAP/reference	1.06258	0.621
39DAP/reference	0.95471	0.328
41DAP/reference	1.15865	0.439
42DAP/reference	1.13657	0.391
43DAP/reference	0.88329	0.398
47DAP/reference	0.88119	0.153
52DAP/reference	1.01683	0.979
57DAP/reference	0.97559	0.564

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20493	0.966
26DAP/20DAP	0.93578	0.512
34DAP/26DAP	1.01903	1
51DAP/34DAP	1.01426	0.957
52DAP/51DAP	0.72178	1
53DAP/52DAP	1.01081	0.951
55DAP/53DAP	1.2133	0.387
57DAP/55DAP	0.99398	0.899
62DAP/57DAP	1.0603	1
68DAP/62DAP	0.83111	0.505
68DAP/14DAP	1.11106	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9755	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.02873	1
Mature Green Tomato/Ripe Tomato	1.01351	1
Immature Eggplant/Mature Eggplant	1.11618	0.215
Ripe Pepper/Ripe Tomato	1.43052	1
Mature Eggplant/Ripe Tomato	1.52868	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.27732
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.98037	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	1.10765
2-6/M82	N/A	N/A
3-2/M82	1.22258	0.717
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.29213	0.268
5-3/M82	0.76696	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.5442
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	0.94246	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.8488	0.418
IL12-4/WTpooled	1.09367	0.557
IL1-4/WTpooled	1.17562
WT/WTpooled	1.03977	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	0.95235	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93319	1
DC3000/delta hrp 6h	1.02404	1
DC3000/delta hrp 12h	1.12026	1
DC3000/delta hrp 24h	1.00902	0.797

Experiment: DC3000 effector mutants

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

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96421	1
Exp 36h	1.13752	1
Exp 60h	1.12733	0.563

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	1.01824	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.97874	0.324
transgenic ySAMdc/azygous control (breaker)	0.72076	0.131
transgenic ySAMdc/azygous control (red)	0.81838	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02385	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.65689	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.74703	0.172
Manapal/WT (break)	0.79183	0.299
Manapal/WT (red)	0.84818	0.503