Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.4.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25482	0.545
27DAP/17DAP	3.60729	0.613
39DAP/27DAP	1.48584	0.277
41DAP/39DAP	1.63043	0.233
42DAP/41DAP	2.39268	0.025
43DAP/42DAP	1.99191	0.378
47DAP/43DAP	1.02643	0.909
52DAP/47DAP	0.42265	0.033
57DAP/52DAP	1.37772	0.787

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71652	0.025
17DAP/reference	0.75858	0.015
27DAP/reference	1.01576	0.885
39DAP/reference	0.92868	0.35
41DAP/reference	0.75272	0.018
42DAP/reference	1.08027	0.103
43DAP/reference	1.23324	0.009
47DAP/reference	1.24776	0.001
52DAP/reference	1.15116	0.045
57DAP/reference	1.21501	0.094

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23605	0.414
27DAP/17DAP	1.0843	0.98
39DAP/27DAP	1.61781	0.12
41DAP/39DAP	0.70134	0.101
42DAP/41DAP	1.37364	0.015
43DAP/42DAP	2.13065	0.018
47DAP/43DAP	0.90609	0.559
52DAP/47DAP	1.03521	0.991
57DAP/52DAP	1.18889	0.389
57DAP/7DAP	2.68414	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81009	0.361
17DAP/reference	1.02067	1
27DAP/reference	1.14099	0.03
39DAP/reference	1.22032	0.297
41DAP/reference	0.89206	0.311
42DAP/reference	0.98853	0.713
43DAP/reference	0.96995	0.58
47DAP/reference	1.16258	0.45
52DAP/reference	1.16182	0.328
57DAP/reference	0.86589	0.077

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03131	0.786
17DAP/reference	0.80558	0.143
27DAP/reference	0.89499	0.327
39DAP/reference	0.87327	0.117
41DAP/reference	0.8754	0.188
42DAP/reference	0.8721	0.089
43DAP/reference	0.85035	0.217
47DAP/reference	0.74493	0.012
52DAP/reference	0.91661	0.086
57DAP/reference	0.88507	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01966	1
17DAP/reference	0.90219	0.433
27DAP/reference	0.88105	0.442
39DAP/reference	1.04331	0.935
41DAP/reference	1.09986	0.796
42DAP/reference	1.26674	0.078
43DAP/reference	1.1068	0.331
47DAP/reference	1.22575	0.046
52DAP/reference	1.41485	0.141
57DAP/reference	1.11498	0.347

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.54924	0.878
26DAP/20DAP	1.04573	1
34DAP/26DAP	1.66899	0.19
51DAP/34DAP	2.8284	0.021
52DAP/51DAP	0.61775	0.151
53DAP/52DAP	2.27263	0.031
55DAP/53DAP	0.79281	0.203
57DAP/55DAP	1.30784	0.682
62DAP/57DAP	0.79874	0.681
68DAP/62DAP	1.31398	0.549
68DAP/14DAP	1.66325	0.189

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77667	0.145

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.27563
Mature Green Tomato/Ripe Tomato	0.193	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.08341	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.39573
12-2/M82	N/A	N/A
12-4/M82	2.21176
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	1.35478
4-1-1/M82	N/A	N/A
4-1/M82	1.33225
4-3-2/M82	1.15636	0.508
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	0.64938
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	0.87061	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.17353	1
IL12-4/WTpooled	1.07739	1
IL1-4/WTpooled	1.00487
WT/WTpooled	1.02804	0.855

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	0.92319	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99456	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.36855
DC3000/delta hrp 24h	0.57573	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11589	0.313
DC3000 delta B/DC3000 delta AB	1.16077	0.415

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	1.18934	1

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	N/A	N/A
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)	1.01681	1
transgenic ySAMdc/azygous control (breaker)	0.97075	1
transgenic ySAMdc/azygous control (red)	0.8988	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01046	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.76718	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.21731	0.14
Manapal/WT (break)	1.30352	0.183
Manapal/WT (red)	1.14794	1