Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.4.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15194	0.977
27DAP/17DAP	1.03847	0.923
39DAP/27DAP	1.14	0.618
41DAP/39DAP	1.0558	0.921
42DAP/41DAP	0.80748	1
43DAP/42DAP	0.79247	0.572
47DAP/43DAP	1.64683	0.364
52DAP/47DAP	0.76527	0.508
57DAP/52DAP	1.34817	0.685

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98868	0.661
17DAP/reference	1.0769	0.201
27DAP/reference	1.0685	0.384
39DAP/reference	0.91183	0.284
41DAP/reference	0.93885	0.667
42DAP/reference	0.92948	0.107
43DAP/reference	1.12781
47DAP/reference	1.02588	0.752
52DAP/reference	1.16844	0.158
57DAP/reference	0.54048

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82803	0.35
27DAP/17DAP	1.12814	0.836
39DAP/27DAP	1.18631	0.558
41DAP/39DAP	0.95794	0.923
42DAP/41DAP	1.20448	0.446
43DAP/42DAP	1.09636	0.382
47DAP/43DAP	0.8407	0.214
52DAP/47DAP	0.98393	0.925
57DAP/52DAP	1.05321	0.848
57DAP/7DAP	1.48606	0.132

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86175	0.1
17DAP/reference	0.63912	0.012
27DAP/reference	0.84516	0.101
39DAP/reference	0.71589	0.011
41DAP/reference	0.73314	0.043
42DAP/reference	0.65957	0.01
43DAP/reference	0.70087	0.018
47DAP/reference	0.83059	0.222
52DAP/reference	0.6643	0.011
57DAP/reference	0.70798	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96068	0.639
17DAP/reference	0.99911	0.786
27DAP/reference	1.01569	1
39DAP/reference	0.9415	0.055
41DAP/reference	0.84225	0.034
42DAP/reference	0.84495	0.011
43DAP/reference	0.86786	0.162
47DAP/reference	0.87275	0.027
52DAP/reference	1.10662
57DAP/reference	1.77158	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96054	0.455
17DAP/reference	0.92724	0.407
27DAP/reference	0.72355	0.025
39DAP/reference	0.79553	0.018
41DAP/reference	0.83197	0.019
42DAP/reference	0.88899	0.172
43DAP/reference	0.97552	0.59
47DAP/reference	1.21497	0.461
52DAP/reference	0.78089	0.166
57DAP/reference	1.05636	0.771

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.23459	0.945
26DAP/20DAP	0.88378	1
34DAP/26DAP	1.01535	1
51DAP/34DAP	1.25493	0.473
52DAP/51DAP	0.74049	0.151
53DAP/52DAP	0.86219	0.393
55DAP/53DAP	0.81056	0.43
57DAP/55DAP	1.54194	0.203
62DAP/57DAP	0.95832	0.994
68DAP/62DAP	1.05659	1
68DAP/14DAP	1.79951	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.74292	0.039

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.12749	0.417
Mature Green Tomato/Ripe Tomato	0.3983	0.018
Immature Eggplant/Mature Eggplant	1.01081	1
Ripe Pepper/Ripe Tomato	1.0341	1
Mature Eggplant/Ripe Tomato	1.10774	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07376
1-1-2/M82	1.1564	1
12-2/M82	N/A	N/A
12-4/M82	0.97246	1
1-3/M82	N/A	N/A
2-1-1/M82	0.82635
2-1/M82	N/A	N/A
2-6/M82	1.04448	1
3-2/M82	N/A	N/A
4-1-1/M82	0.91095
4-1/M82	N/A	N/A
4-3-2/M82	1.24723
4-3/M82	N/A	N/A
5-3/M82	0.95544
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.06931
9-3-2/M82	1.30437

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8618	0.243
IL2-6/WTpooled	1.02439	1
IL7-5/WTpooled	1.03006	1
IL7-3/WTpooled	0.87315	1
IL12-4/WTpooled	1.04367	0.785
IL1-4/WTpooled	0.98412	1
WT/WTpooled	0.98053	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	1.03195	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.17705	0.75
DC3000/delta hrp 6h	1.18651	1
DC3000/delta hrp 12h	1.01521	1
DC3000/delta hrp 24h	0.86684	0.194

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.05871	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06484
Var 0h	1.01637	1
Var 12h I row2-row1	1.05244
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	1.08252	0.742
Var 36h NI row2-row1	1.06767
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	1.0407	0.852
Time course 12hI-12hNI	1.39302	0.014
Time course 36hI-36hNI	1.56232	0.005
Time course 60hI-60hNI	1.51555	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)	1.036	0.372
transgenic ySAMdc/azygous control (breaker)	1.09805	1
transgenic ySAMdc/azygous control (red)	0.94078	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94673	0.186

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05205	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.60599	0.172
Manapal/WT (break)	0.84707	0.333
Manapal/WT (red)	1.0704	0.413