Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.1.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81023	0.116
27DAP/17DAP	0.82807	0.611
39DAP/27DAP	0.88059	0.487
41DAP/39DAP	0.87757	0.607
42DAP/41DAP	1.23297	0.654
43DAP/42DAP	1.05997	0.937
47DAP/43DAP	0.85509	0.517
52DAP/47DAP	0.66547	0.169
57DAP/52DAP	1.26299	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92332	0.3
17DAP/reference	0.84242	0.194
27DAP/reference	1.0734	0.66
39DAP/reference	0.96249	0.575
41DAP/reference	0.98474	0.814
42DAP/reference	1.02779	0.665
43DAP/reference	0.92156	0.346
47DAP/reference	1.01522	1
52DAP/reference	0.99044	0.598
57DAP/reference	0.97055	0.435

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.42043	0.305
27DAP/17DAP	0.74081	0.114
39DAP/27DAP	0.77003	0.239
41DAP/39DAP	1.16687	0.514
42DAP/41DAP	0.82018	0.197
43DAP/42DAP	1.06126	0.664
47DAP/43DAP	1.03873	0.93
52DAP/47DAP	1.10603	0.666
57DAP/52DAP	0.88256	0.488
57DAP/7DAP	2.2582	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79445	0.095
17DAP/reference	1.17726	0.525
27DAP/reference	1.00009	0.698
39DAP/reference	1.0707	0.411
41DAP/reference	0.92596	0.213
42DAP/reference	1.15325	0.174
43DAP/reference	1.00396	0.665
47DAP/reference	1.02181	1
52DAP/reference	0.88136	0.232
57DAP/reference	1.08346	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9812	0.77
17DAP/reference	0.96736	0.548
27DAP/reference	0.98027	0.554
39DAP/reference	1.04065	1
41DAP/reference	1.04567	0.614
42DAP/reference	1.0164	1
43DAP/reference	1.31193	0.347
47DAP/reference	1.00944	1
52DAP/reference	1.10188	0.498
57DAP/reference	0.84785	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05831	0.545
17DAP/reference	1.02557	0.792
27DAP/reference	1.04859	0.883
39DAP/reference	1.40092	0.081
41DAP/reference	1.0247	0.826
42DAP/reference	1.04092	0.54
43DAP/reference	1.02609	0.855
47DAP/reference	0.9966	0.667
52DAP/reference	1.32058	0.491
57DAP/reference	1.1884	0.132

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.39805	0.966
26DAP/20DAP	1.03043	1
34DAP/26DAP	0.95817	0.954
51DAP/34DAP	1.31721	0.271
52DAP/51DAP	0.90932	1
53DAP/52DAP	1.26705	0.25
55DAP/53DAP	0.88828	0.544
57DAP/55DAP	1.24834	0.865
62DAP/57DAP	0.90128	0.681
68DAP/62DAP	2.00942	0.539
68DAP/14DAP	1.0873	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08769	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.69553	0.187
Mature Green Tomato/Ripe Tomato	1.50047
Immature Eggplant/Mature Eggplant	0.76368	0.1
Ripe Pepper/Ripe Tomato	3.22662	0.258
Mature Eggplant/Ripe Tomato	2.18883	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.23996	0.742
1-1-2/M82	1.15546
12-2/M82	N/A	N/A
12-4/M82	0.60537	0.282
1-3/M82	N/A	N/A
2-1-1/M82	0.94643
2-1/M82	N/A	N/A
2-6/M82	0.87246
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	1.35954
5-3/M82	0.97565	1
6-2/M82	0.3731
6-3/M82	1.17656
7-1/M82	N/A	N/A
7-2/M82	0.98703
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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.52089
IL12-4/WTpooled	0.813	0.71
IL1-4/WTpooled	1.41425	1
WT/WTpooled	1.1438	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	0.92516	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97872	1
DC3000/delta hrp 6h	1.2483	0.449
DC3000/delta hrp 12h	1.03726	1
DC3000/delta hrp 24h	0.76028	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.75619	0.436
DC3000 delta B/DC3000 delta AB	0.66404	0.236

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88421	1
Exp 36h	0.64462	0.449
Exp 60h	0.68465	0.266

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03469	1
Var 0h	0.82337	1
Var 12h I row2-row1	0.74677	0.418
Var 12h NI row2-row1	1.17327	0.34
Var 36h I row2-row1	0.96039	1
Var 36h NI row2-row1	1.08081	1
Var 60h I row2-row1	0.97737	1
Var 60h NI row2-row1	1.0833	1
Time course 0hI-0hNI	0.89668	0.347
Time course 12hI-12hNI	0.9989	1
Time course 36hI-36hNI	0.82943	0.026
Time course 60hI-60hNI	0.11822	0.005

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)	1.1801	0.256
transgenic ySAMdc/azygous control (breaker)	1.09972	0.248
transgenic ySAMdc/azygous control (red)	1.2093	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00645	0.723

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.28167	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.24239	0.083
Manapal/WT (break)	2.29493	0.13
Manapal/WT (red)	1.95165	0.134