Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.9.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24704	0.403
27DAP/17DAP	1.17918	0.793
39DAP/27DAP	1.01564	1
41DAP/39DAP	1.09425	0.67
42DAP/41DAP	1.37296	0.519
43DAP/42DAP	0.97712	0.925
47DAP/43DAP	0.89974	0.652
52DAP/47DAP	1.41238	0.406
57DAP/52DAP	0.80534	0.602

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0079	0.872
17DAP/reference	0.98586	0.567
27DAP/reference	0.89297	0.04
39DAP/reference	0.98685	0.75
41DAP/reference	0.99154	0.814
42DAP/reference	1.07208	0.065
43DAP/reference	0.9554	0.377
47DAP/reference	0.88933	0.071
52DAP/reference	0.84336	0.015
57DAP/reference	0.78245	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93816	0.542
27DAP/17DAP	1.03302	0.942
39DAP/27DAP	0.99462	1
41DAP/39DAP	0.98384	0.997
42DAP/41DAP	1.01267	1
43DAP/42DAP	1.05146	0.478
47DAP/43DAP	0.99874	0.99
52DAP/47DAP	1.00093	0.975
57DAP/52DAP	0.98169	0.753
57DAP/7DAP	1.49772	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90873	0.104
17DAP/reference	0.93359	0.082
27DAP/reference	0.94511	0.03
39DAP/reference	0.91815	0.021
41DAP/reference	0.8479	0.039
42DAP/reference	0.75371	0.01
43DAP/reference	0.92637	0.159
47DAP/reference	0.8253	0.128
52DAP/reference	0.89622	0.106
57DAP/reference	0.88054	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.028	0.712
17DAP/reference	1.08728	0.028
27DAP/reference	0.91941	0.366
39DAP/reference	0.97203	0.469
41DAP/reference	0.7909	0.103
42DAP/reference	1.05961	0.759
43DAP/reference	1.33125	0.024
47DAP/reference	1.14377	0.197
52DAP/reference	0.99481	0.666
57DAP/reference	1.09241	0.296

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96052	0.335
17DAP/reference	1.05034	0.627
27DAP/reference	0.92826	0.05
39DAP/reference	0.89021	0.016
41DAP/reference	0.96196	0.512
42DAP/reference	0.97176	0.134
43DAP/reference	0.9755	0.568
47DAP/reference	1.01262	1
52DAP/reference	0.91742	0.223
57DAP/reference	0.78125	0.042

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01644	1
26DAP/20DAP	0.94874	1
34DAP/26DAP	1.10063	1
51DAP/34DAP	1.30773	0.05
52DAP/51DAP	1.06697	0.588
53DAP/52DAP	1.15743	0.134
55DAP/53DAP	1.15128	0.656
57DAP/55DAP	0.98137	0.819
62DAP/57DAP	1.11353	0.622
68DAP/62DAP	0.96316	0.81
68DAP/14DAP	0.86578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70677	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.35746	0.058
Mature Green Tomato/Ripe Tomato	1.37036	0.032
Immature Eggplant/Mature Eggplant	0.81449	0.254
Ripe Pepper/Ripe Tomato	0.05562
Mature Eggplant/Ripe Tomato	1.34926	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01744	1
1-1-2/M82	0.92376	1
12-2/M82	1.28423	0.61
12-4/M82	0.92438	1
1-3/M82	0.95976	1
2-1-1/M82	1.14134	0.764
2-1/M82	N/A	N/A
2-6/M82	0.99259	1
3-2/M82	0.86664
4-1-1/M82	0.91501	1
4-1/M82	0.84638
4-3-2/M82	1.0241	1
4-3/M82	0.77977	0.578
5-3/M82	0.99493	1
6-2/M82	0.94965	1
6-3/M82	0.94194	0.982
7-1/M82	1.2756
7-2/M82	0.90772	0.796
9-3-2/M82	0.83485	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.81399	0.247
IL2-6/WTpooled	0.96693	1
IL7-5/WTpooled	1.23418	0.792
IL7-3/WTpooled	0.83335	0.31
IL12-4/WTpooled	1.01946	1
IL1-4/WTpooled	0.94919	0.562
WT/WTpooled	1.00488	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	0.85577	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06199	0.921
DC3000/delta hrp 6h	1.13255	1
DC3000/delta hrp 12h	1.32659	1
DC3000/delta hrp 24h	1.51681	0.336

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.09691	0.121
DC3000 delta B/DC3000 delta AB	1.18013	0.209

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.32765	0.254
Exp 36h	0.84269	0.82
Exp 60h	1.01639	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	1.11114	0.98
Var 12h I row2-row1	1.29242	0.204
Var 12h NI row2-row1	0.85986	0.36
Var 36h I row2-row1	1.07439	1
Var 36h NI row2-row1	0.94585	0.743
Var 60h I row2-row1	1.17994	0.543
Var 60h NI row2-row1	1.16393	0.904
Time course 0hI-0hNI	1.00828	1
Time course 12hI-12hNI	1.00036	1
Time course 36hI-36hNI	0.8461	0.36
Time course 60hI-60hNI	0.9213	0.319

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)	2.22689	0.347
transgenic ySAMdc/azygous control (breaker)	0.38107	0.125
transgenic ySAMdc/azygous control (red)	1.18797	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00064	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06007	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.59961	0.172
Manapal/WT (break)	0.4743	0.299
Manapal/WT (red)	0.65874	0.183