Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.11.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13429	0.681
27DAP/17DAP	0.9601	0.959
39DAP/27DAP	0.83302	0.326
41DAP/39DAP	1.28947	0.208
42DAP/41DAP	0.90773	1
43DAP/42DAP	1.02676	1
47DAP/43DAP	0.98142	0.851
52DAP/47DAP	1.13003	0.676
57DAP/52DAP	1.02353	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95483	0.224
17DAP/reference	1.03237	0.148
27DAP/reference	1.01383	0.88
39DAP/reference	1.06292	0.096
41DAP/reference	1.07203	0.015
42DAP/reference	0.91787	0.007
43DAP/reference	1.01008	0.957
47DAP/reference	1.04516	0.275
52DAP/reference	0.9483	0.33
57DAP/reference	0.95854	0.221

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	N/A	N/A
27DAP/17DAP	0.91754
39DAP/27DAP	1.00852	0.854
41DAP/39DAP	0.93628	0.662
42DAP/41DAP	1.01107	1
43DAP/42DAP	1.06266	0.273
47DAP/43DAP	0.99812	0.997
52DAP/47DAP	1.06376	0.826
57DAP/52DAP	0.97538	0.793
57DAP/7DAP	0.97873

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02194
17DAP/reference	0.90957	0.167
27DAP/reference	0.90775	0.01
39DAP/reference	0.94209	0.021
41DAP/reference	0.94177	0.076
42DAP/reference	0.96959	0.178
43DAP/reference	0.95604	0.022
47DAP/reference	0.91179	0.168
52DAP/reference	0.99061	0.571
57DAP/reference	0.98672	0.426

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06159	0.384
17DAP/reference	1.10513	0.065
27DAP/reference	0.88259	0.097
39DAP/reference	0.91738	0.14
41DAP/reference	0.92028	0.067
42DAP/reference	0.91872	0.121
43DAP/reference	1.10139	0.485
47DAP/reference	1.00103	1
52DAP/reference	1.03983	0.417
57DAP/reference	1.09045	0.244

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89516	0.061
17DAP/reference	1.00822	1
27DAP/reference	0.92022	0.113
39DAP/reference	0.93176	0.037
41DAP/reference	0.9646	0.459
42DAP/reference	0.86043	0.023
43DAP/reference	0.85636	0.059
47DAP/reference	1.09134	0.089
52DAP/reference	1.02424	0.837
57DAP/reference	0.8459	0.07

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99046	1
26DAP/20DAP	0.95434	1
34DAP/26DAP	0.97311	0.861
51DAP/34DAP	1.01976	0.84
52DAP/51DAP	1.00805	0.925
53DAP/52DAP	0.87307
55DAP/53DAP	1.05969	0.938
57DAP/55DAP	1.18911	0.694
62DAP/57DAP	1.01924	1
68DAP/62DAP	1.05549	0.945
68DAP/14DAP	0.9993	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87727	0.102

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.54831	0.038
Immature Eggplant/Mature Eggplant	0.90318	0.912
Ripe Pepper/Ripe Tomato	0.17771	0.224
Mature Eggplant/Ripe Tomato	0.13929	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96627	0.944
1-1-2/M82	0.95056	1
12-2/M82	0.95298	0.955
12-4/M82	1.02957	1
1-3/M82	0.99699	1
2-1-1/M82	1.06527	0.764
2-1/M82	1.66032	1
2-6/M82	0.98496	1
3-2/M82	1.00004	1
4-1-1/M82	1.06432	1
4-1/M82	0.9317	1
4-3-2/M82	1.00263	1
4-3/M82	0.9706	1
5-3/M82	1.01089	1
6-2/M82	1.01504	1
6-3/M82	1.00766	1
7-1/M82	0.96938	0.509
7-2/M82	0.99938	1
9-3-2/M82	0.89388	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.29051
IL2-6/WTpooled	0.87557	1
IL7-5/WTpooled	1.0091	1
IL7-3/WTpooled	1.23726	0.362
IL12-4/WTpooled	1.13568	0.695
IL1-4/WTpooled	0.92769	0.834
WT/WTpooled	1.03496	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	1.3326	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06099	0.914
DC3000/delta hrp 6h	0.86101
DC3000/delta hrp 12h	0.84044	1
DC3000/delta hrp 24h	0.98987	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14557	0.081
DC3000 delta B/DC3000 delta AB	1.05923	0.472

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	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	0.9805	1
Var 0h	0.98087	1
Var 12h I row2-row1	1.14772	0.196
Var 12h NI row2-row1	0.99912	1
Var 36h I row2-row1	0.91903	1
Var 36h NI row2-row1	1.48425	1
Var 60h I row2-row1	1.23512	1
Var 60h NI row2-row1	1.05582	1
Time course 0hI-0hNI	1.05749	0.867
Time course 12hI-12hNI	1.0265	0.88
Time course 36hI-36hNI	0.98023	0.524
Time course 60hI-60hNI	1.06665	0.302

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)	1.1317	0.571
transgenic ySAMdc/azygous control (breaker)	0.54239	0.131
transgenic ySAMdc/azygous control (red)	0.61399	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00007	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.41489	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11407	1
Manapal/WT (break)	1.46187	1
Manapal/WT (red)	2.24515	0.15