Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.7.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10409	0.709
27DAP/17DAP	1.25517	0.742
39DAP/27DAP	1.16049	0.765
41DAP/39DAP	1.3456	0.102
42DAP/41DAP	1.20306	0.681
43DAP/42DAP	1.148	0.956
47DAP/43DAP	0.85504	0.546
52DAP/47DAP	1.18859	0.699
57DAP/52DAP	1.03802	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94917	0.432
17DAP/reference	0.99892	1
27DAP/reference	1.02678	0.806
39DAP/reference	1.00437	0.92
41DAP/reference	1.00732	1
42DAP/reference	0.85036	0.011
43DAP/reference	1.04526	0.425
47DAP/reference	0.89239	0.001
52DAP/reference	0.85712	0.177
57DAP/reference	0.72441	0.026

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97208	0.679
27DAP/17DAP	0.99827	0.969
39DAP/27DAP	1.15396	0.161
41DAP/39DAP	0.73584	0.013
42DAP/41DAP	1.14798	0.045
43DAP/42DAP	1.37968	0.014
47DAP/43DAP	0.94748	0.447
52DAP/47DAP	0.96352	0.746
57DAP/52DAP	0.91229	0.239
57DAP/7DAP	1.11433	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80233	0.049
17DAP/reference	0.82991	0.012
27DAP/reference	0.87139	0.011
39DAP/reference	0.979	0.354
41DAP/reference	0.93208	0.107
42DAP/reference	1.00336	1
43DAP/reference	0.94099	0.1
47DAP/reference	0.90887	0.222
52DAP/reference	0.87067	0.033
57DAP/reference	0.80504	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02037	0.952
17DAP/reference	0.9095	0.17
27DAP/reference	0.79584	0.079
39DAP/reference	0.80217	0.077
41DAP/reference	0.79692	0.036
42DAP/reference	0.78694	0.098
43DAP/reference	1.02885	0.957
47DAP/reference	0.93648	0.184
52DAP/reference	0.92595	0.131
57DAP/reference	1.13579	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82944	0.065
17DAP/reference	0.92285	0.452
27DAP/reference	0.8838	0.031
39DAP/reference	0.95966	0.076
41DAP/reference	0.96242	0.618
42DAP/reference	1.39617	0.5
43DAP/reference	0.92398	0.449
47DAP/reference	0.89971	0.325
52DAP/reference	1.08924	0.639
57DAP/reference	0.54049	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94986	1
26DAP/20DAP	0.95818	1
34DAP/26DAP	0.99221	1
51DAP/34DAP	1.04468	0.795
52DAP/51DAP	1.05075	0.588
53DAP/52DAP	1.00025	1
55DAP/53DAP	1.01178	1
57DAP/55DAP	1.08028	0.927
62DAP/57DAP	1.06206	0.002
68DAP/62DAP	0.84456	0.211
68DAP/14DAP	0.92941	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.4305	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	0.59282	0.018
Immature Eggplant/Mature Eggplant	1.37814
Ripe Pepper/Ripe Tomato	0.15859
Mature Eggplant/Ripe Tomato	0.11506	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10937	0.591
1-1-2/M82	N/A	N/A
12-2/M82	0.9182	0.955
12-4/M82	0.95953	1
1-3/M82	1.34502	0.248
2-1-1/M82	0.94901	0.92
2-1/M82	0.97771	1
2-6/M82	0.95845	1
3-2/M82	1.05589	0.388
4-1-1/M82	1.08524	1
4-1/M82	0.76963
4-3-2/M82	1.24971	0.246
4-3/M82	0.98138	1
5-3/M82	1.00561	1
6-2/M82	0.9699
6-3/M82	0.94531	1
7-1/M82	0.86034	0.803
7-2/M82	0.85228	0.881
9-3-2/M82	1.0082	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8692	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.23618	0.75
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.92251	1
IL1-4/WTpooled	0.98167	1
WT/WTpooled	N/A	N/A

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	1.03029	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99547	1
DC3000/delta hrp 6h	1.75856	1
DC3000/delta hrp 12h	1.17202	1
DC3000/delta hrp 24h	0.97686	0.887

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04983	0.408
DC3000 delta B/DC3000 delta AB	0.98056	0.826

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.88459	0.879
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	1.01351	1
Var 0h	1.04337	1
Var 12h I row2-row1	1.10829	0.209
Var 12h NI row2-row1	1.03924	0.649
Var 36h I row2-row1	1.01343	1
Var 36h NI row2-row1	1.09632	0.482
Var 60h I row2-row1	1.10754	1
Var 60h NI row2-row1	1.04465	0.904
Time course 0hI-0hNI	1.0515	0.852
Time course 12hI-12hNI	0.97108	0.752
Time course 36hI-36hNI	0.82224	0.031
Time course 60hI-60hNI	1.00488	1

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)	1.15597	0.272
transgenic ySAMdc/azygous control (breaker)	1.11715	0.248
transgenic ySAMdc/azygous control (red)	1.02876	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9852	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.1454	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.12134	0.307
Manapal/WT (break)	0.94538	1
Manapal/WT (red)	1.08725	1