Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.18.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18565	0.812
27DAP/17DAP	1.04999	0.984
39DAP/27DAP	0.98313	0.733
41DAP/39DAP	1.14279	0.685
42DAP/41DAP	0.95367	1
43DAP/42DAP	1.19063	0.864
47DAP/43DAP	1.40483	0.448
52DAP/47DAP	1.3828	0.688
57DAP/52DAP	1.31917	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94882	0.465
17DAP/reference	1.16737	0.017
27DAP/reference	1.01637	0.909
39DAP/reference	1.04558	0.326
41DAP/reference	1.23757	0.036
42DAP/reference	0.86866	0.006
43DAP/reference	0.97067	0.653
47DAP/reference	0.8492	0.001
52DAP/reference	0.86994	0.177
57DAP/reference	0.85217	0.176

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82741	0.716
27DAP/17DAP	1.03632	1
39DAP/27DAP	0.64887	0.462
41DAP/39DAP	1.32171	0.774
42DAP/41DAP	0.78157	0.216
43DAP/42DAP	1.26372	0.324
47DAP/43DAP	0.93647	0.855
52DAP/47DAP	1.34686	0.266
57DAP/52DAP	2.0545	0.219
57DAP/7DAP	1.00585

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87638	0.104
17DAP/reference	1.07197	0.754
27DAP/reference	1.13163	0.088
39DAP/reference	1.14794	0.222
41DAP/reference	1.12673	0.303
42DAP/reference	0.99055	0.582
43DAP/reference	1.10859	0.364
47DAP/reference	0.89695	0.222
52DAP/reference	1.15649	0.092
57DAP/reference	1.29435	0.17

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07318	0.315
17DAP/reference	0.97844	0.548
27DAP/reference	0.7964	0.097
39DAP/reference	0.86	0.173
41DAP/reference	0.81863	0.073
42DAP/reference	0.80546	0.035
43DAP/reference	1.04272	0.845
47DAP/reference	0.89665	0.051
52DAP/reference	0.97964	0.407
57DAP/reference	1.1121	0.286

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99278	0.653
17DAP/reference	1.0318	1
27DAP/reference	1.09576	0.408
39DAP/reference	1.06484	0.365
41DAP/reference	1.10414	0.521
42DAP/reference	1.05828	0.877
43DAP/reference	0.96878	0.503
47DAP/reference	0.92631	0.315
52DAP/reference	1.04044	0.837
57DAP/reference	0.61399	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10906	0.786
26DAP/20DAP	1.43189	0.598
34DAP/26DAP	1.03789	1
51DAP/34DAP	0.71892	0.492
52DAP/51DAP	1.4748
53DAP/52DAP	0.8634	0.489
55DAP/53DAP	1.14196	0.976
57DAP/55DAP	1.01143	0.953
62DAP/57DAP	0.92833	0.871
68DAP/62DAP	0.95425	0.787
68DAP/14DAP	0.81003	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65692	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.00462
Immature Eggplant/Mature Eggplant	1.61163	0.05
Ripe Pepper/Ripe Tomato	2.28662
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	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.8852
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	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	N/A	N/A
5-3/M82	0.87982
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
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	0.84303	0.243
IL2-6/WTpooled	1.18652	0.531
IL7-5/WTpooled	0.92212	1
IL7-3/WTpooled	1.14433	1
IL12-4/WTpooled	1.10539	0.695
IL1-4/WTpooled	0.78822	0.562
WT/WTpooled	1.052	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	1.19711	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97817	1
DC3000/delta hrp 6h	0.87808	0.95
DC3000/delta hrp 12h	1.14955	1
DC3000/delta hrp 24h	1.0239	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99056	1
Exp 36h	1.07199	1
Exp 60h	1.23062	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.08411	1
Var 0h	1.00948	1
Var 12h I row2-row1	1.08982	0.473
Var 12h NI row2-row1	1.15012
Var 36h I row2-row1	1.49656	0.41
Var 36h NI row2-row1	0.99529	1
Var 60h I row2-row1	0.98197	1
Var 60h NI row2-row1	0.53388	1
Time course 0hI-0hNI	1.04748	0.867
Time course 12hI-12hNI	1.7036	0.015
Time course 36hI-36hNI	2.8083	0.004
Time course 60hI-60hNI	8.64973	0.009

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)	1.15441	0.339
transgenic ySAMdc/azygous control (breaker)	0.62417	0.132
transgenic ySAMdc/azygous control (red)	1.02148	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04404	0.234

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87036	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08324	0.14
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.32756	0.413