Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.14.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.67643	0.064
27DAP/17DAP	0.79937	0.491
39DAP/27DAP	1.36275	0.275
41DAP/39DAP	0.61648	0.068
42DAP/41DAP	0.83829	1
43DAP/42DAP	1.00623	0.937
47DAP/43DAP	0.46724	0.049
52DAP/47DAP	1.08772	0.999
57DAP/52DAP	1.36305	0.645

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.73065	0.01
17DAP/reference	0.85383	0.24
27DAP/reference	0.60721	0.013
39DAP/reference	0.67273	0.06
41DAP/reference	0.66806	0.011
42DAP/reference	1.13661	0.013
43DAP/reference	0.72613	0.017
47DAP/reference	0.86331	0.021
52DAP/reference	0.57696	0.022
57DAP/reference	0.72507	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83874	0.043
27DAP/17DAP	1.04305	0.842
39DAP/27DAP	0.75459	0.042
41DAP/39DAP	1.16985	1
42DAP/41DAP	0.98641	0.772
43DAP/42DAP	0.78898	0.04
47DAP/43DAP	0.91406	0.466
52DAP/47DAP	0.56603	0.045
57DAP/52DAP	0.80117	0.304
57DAP/7DAP	0.33705	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.72518	0.024
17DAP/reference	2.1735	0.006
27DAP/reference	1.42773	0.014
39DAP/reference	1.19893	0.046
41DAP/reference	1.57425	0.011
42DAP/reference	1.64857	0.01
43DAP/reference	1.28637	0.015
47DAP/reference	1.17083	0.36
52DAP/reference	1.19438	0.229
57DAP/reference	1.0061	0.775

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26972	0.538
17DAP/reference	1.58891	0.012
27DAP/reference	1.30224	0.67
39DAP/reference	0.9724	0.485
41DAP/reference	1.01874	0.615
42DAP/reference	1.67747	0.007
43DAP/reference	0.92641	0.394
47DAP/reference	1.1567	0.4
52DAP/reference	0.61103	0.004
57DAP/reference	0.75062	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.12224	0.015
17DAP/reference	1.50762	0.209
27DAP/reference	1.47843	0.03
39DAP/reference	1.57119	0.008
41DAP/reference	1.0956	0.168
42DAP/reference	1.09025	0.49
43DAP/reference	1.28217	0.157
47DAP/reference	0.52533	0.005
52DAP/reference	0.9623	0.562
57DAP/reference	0.96925	0.461

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.78658	0.121
26DAP/20DAP	3.92318	0.097
34DAP/26DAP	0.72357	0.148
51DAP/34DAP	1.02049	0.98
52DAP/51DAP	0.98279	1
53DAP/52DAP	0.88655	0.475
55DAP/53DAP	0.80956	0.218
57DAP/55DAP	2.26116	0.584
62DAP/57DAP	4.13573	0.678
68DAP/62DAP	1.06135	0.808
68DAP/14DAP	0.88574	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.74064	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.93516	0.577
Mature Green Tomato/Ripe Tomato	2.15227	0.016
Immature Eggplant/Mature Eggplant	1.08151	0.321
Ripe Pepper/Ripe Tomato	1.03977	1
Mature Eggplant/Ripe Tomato	1.77252	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94463	0.634
1-1-2/M82	1.03284	1
12-2/M82	0.80557	0.955
12-4/M82	1.29728	1
1-3/M82	1.48185
2-1-1/M82	1.24247	0.439
2-1/M82	1.06539	1
2-6/M82	1.17193	0.329
3-2/M82	1.07908	0.967
4-1-1/M82	1.3726	1
4-1/M82	0.92683
4-3-2/M82	1.81201	0.508
4-3/M82	1.78344	0.268
5-3/M82	1.34407	0.496
6-2/M82	1.58365	1
6-3/M82	1.02946	1
7-1/M82	1.0915	0.87
7-2/M82	1.24326	0.385
9-3-2/M82	1.79206

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.6458	0.243
IL2-6/WTpooled	1.23777	0.427
IL7-5/WTpooled	0.76128	1
IL7-3/WTpooled	0.80427	0.298
IL12-4/WTpooled	1.00243	1
IL1-4/WTpooled	0.82533	0.834
WT/WTpooled	1.04186	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	1.22791	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9868	1
DC3000/delta hrp 6h	0.95447	0.95
DC3000/delta hrp 12h	1.3615	1
DC3000/delta hrp 24h	0.9987	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.28735	0.043
DC3000 delta B/DC3000 delta AB	1.45331	0.111

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26709	1
Exp 36h	1.37584	0.693
Exp 60h	1.51038	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02094	1
Var 0h	1.44663	0.374
Var 12h I row2-row1	1.18766	0.692
Var 12h NI row2-row1	1.04507	1
Var 36h I row2-row1	1.20308	0.368
Var 36h NI row2-row1	0.84431	0.478
Var 60h I row2-row1	0.89538	0.293
Var 60h NI row2-row1	0.87547	0.818
Time course 0hI-0hNI	1.11439	0.63
Time course 12hI-12hNI	1.03013	0.788
Time course 36hI-36hNI	1.43405	0.005
Time course 60hI-60hNI	1.96336	0.011

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)	1.09291	0.612
transgenic ySAMdc/azygous control (breaker)	1.13386	1
transgenic ySAMdc/azygous control (red)	1.18548	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.28522	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72363	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08533	0.307
Manapal/WT (break)	1.14836	0.381
Manapal/WT (red)	0.94037	0.36