Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.8.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92377	0.578
27DAP/17DAP	1.26562	0.761
39DAP/27DAP	0.96559	0.719
41DAP/39DAP	1.05834	1
42DAP/41DAP	1.08031	0.997
43DAP/42DAP	0.98886	0.93
47DAP/43DAP	1.17577	0.733
52DAP/47DAP	1.02201	0.956
57DAP/52DAP	1.14946	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02684	0.844
17DAP/reference	1.02389	0.717
27DAP/reference	0.993	0.779
39DAP/reference	0.99562	0.885
41DAP/reference	0.93684	0.434
42DAP/reference	0.97816	0.337
43DAP/reference	0.96713	0.538
47DAP/reference	0.98178	0.473
52DAP/reference	0.88643	0.139
57DAP/reference	1.11824	0.166

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98539	0.75
27DAP/17DAP	1.01521	0.957
39DAP/27DAP	1.02516	0.677
41DAP/39DAP	1.08981	0.641
42DAP/41DAP	0.94089	0.52
43DAP/42DAP	1.12633	0.176
47DAP/43DAP	0.99786	0.998
52DAP/47DAP	0.96702	0.893
57DAP/52DAP	0.98868	0.773
57DAP/7DAP	1.04197	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93046	0.183
17DAP/reference	0.9526	0.338
27DAP/reference	0.93504	0.303
39DAP/reference	0.86966	0.146
41DAP/reference	1.05884	0.678
42DAP/reference	1.01728	1
43DAP/reference	0.94758	0.334
47DAP/reference	1.0109	1
52DAP/reference	0.79884	0.196
57DAP/reference	0.93672	0.302

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1388	0.679
17DAP/reference	1.00423	0.851
27DAP/reference	0.89027	0.203
39DAP/reference	1.28254	0.335
41DAP/reference	1.57435	0.166
42DAP/reference	0.90094	0.237
43DAP/reference	1.11634	0.154
47DAP/reference	0.93706	0.24
52DAP/reference	1.06393	0.882
57DAP/reference	1.11958	0.334

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07006	0.709
17DAP/reference	0.94701	0.477
27DAP/reference	0.88956	0.113
39DAP/reference	0.87959	0.246
41DAP/reference	0.87684	0.185
42DAP/reference	0.7997	0.134
43DAP/reference	0.83595	0.256
47DAP/reference	0.92702	0.207
52DAP/reference	0.84427	0.216
57DAP/reference	0.9433	0.333

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1825	0.916
26DAP/20DAP	0.92789	0.512
34DAP/26DAP	1.03074	1
51DAP/34DAP	0.92676	0.571
52DAP/51DAP	1.0121	0.888
53DAP/52DAP	1.23251	0.489
55DAP/53DAP	1.0033	0.951
57DAP/55DAP	1.17493	0.71
62DAP/57DAP	0.97003	0.994
68DAP/62DAP	1.07817	0.689
68DAP/14DAP	1.09408	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93849	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.33443
Mature Green Tomato/Ripe Tomato	1.06962	0.948
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.99312
Mature Eggplant/Ripe Tomato	1.70556	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.04304	1
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	N/A	N/A
4-3-2/M82	N/A	N/A
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	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.77973

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.84331	0.243
IL2-6/WTpooled	1.07016	0.788
IL7-5/WTpooled	1.13464	1
IL7-3/WTpooled	0.94765	1
IL12-4/WTpooled	0.95083	0.71
IL1-4/WTpooled	1.03795	1
WT/WTpooled	1.05042	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	1.06611	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.2275	0.846
DC3000/delta hrp 6h	1.15941
DC3000/delta hrp 12h	0.88741	1
DC3000/delta hrp 24h	0.80936	0.33

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.09104	0.076
DC3000 delta B/DC3000 delta AB	0.9961	1

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	1.29984	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02279	1
Var 0h	1.29462	0.782
Var 12h I row2-row1	1.04559	0.654
Var 12h NI row2-row1	0.90317	0.488
Var 36h I row2-row1	1.00654	1
Var 36h NI row2-row1	0.83741	0.584
Var 60h I row2-row1	1.17605	0.562
Var 60h NI row2-row1	1.45685	0.904
Time course 0hI-0hNI	1.03133	0.852
Time course 12hI-12hNI	1.0124	0.849
Time course 36hI-36hNI	0.98129	0.524
Time course 60hI-60hNI	1.23179	0.009

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)	0.98481	0.789
transgenic ySAMdc/azygous control (breaker)	1.19589	1
transgenic ySAMdc/azygous control (red)	0.86064	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00898	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97383	1
Manapal/WT (break)	0.86843	1
Manapal/WT (red)	1.08509	1