Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.18.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84147	0.436
27DAP/17DAP	1.54979	0.546
39DAP/27DAP	1.15944	0.732
41DAP/39DAP	1.10185	0.85
42DAP/41DAP	1.53189	0.654
43DAP/42DAP	0.9713	0.912
47DAP/43DAP	1.29319	0.49
52DAP/47DAP	0.91742	0.799
57DAP/52DAP	0.99781	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85453	0.067
17DAP/reference	0.85899	0.158
27DAP/reference	0.91986	0.201
39DAP/reference	0.98323	0.75
41DAP/reference	0.96302	0.542
42DAP/reference	1.16848	0.022
43DAP/reference	2.0762	0.007
47DAP/reference	1.42847	0.018
52DAP/reference	1.03096	1
57DAP/reference	1.30357	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01041	0.871
27DAP/17DAP	1.07492	0.817
39DAP/27DAP	0.85433	0.269
41DAP/39DAP	0.91483	0.599
42DAP/41DAP	1.03735	1
43DAP/42DAP	1.08374	0.324
47DAP/43DAP	1.03922	0.865
52DAP/47DAP	0.97706	0.902
57DAP/52DAP	1.01319	0.984
57DAP/7DAP	1.02668	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20786	0.132
17DAP/reference	1.08306	0.244
27DAP/reference	0.96936	0.43
39DAP/reference	0.93633	0.307
41DAP/reference	0.86874	0.07
42DAP/reference	1.02421	1
43DAP/reference	0.95234	0.305
47DAP/reference	1.06634	0.901
52DAP/reference	0.83808	0.038
57DAP/reference	0.91297	0.114

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99534	0.907
17DAP/reference	0.89415	0.032
27DAP/reference	0.75311	0.014
39DAP/reference	0.92088	0.152
41DAP/reference	0.87317	0.13
42DAP/reference	1.01993	1
43DAP/reference	1.11898	0.532
47DAP/reference	1.25026	0.074
52DAP/reference	0.89371	0.121
57DAP/reference	1.01702	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12286	0.119
17DAP/reference	1.06952	0.563
27DAP/reference	0.96409	0.516
39DAP/reference	0.95543	0.43
41DAP/reference	0.98608	0.682
42DAP/reference	1.2062	0.459
43DAP/reference	1.13515	0.362
47DAP/reference	1.86539	0.006
52DAP/reference	1.1707	0.89
57DAP/reference	1.02522	0.878

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96803	1
26DAP/20DAP	0.85409	0.146
34DAP/26DAP	0.96632	0.94
51DAP/34DAP	0.8137	0.22
52DAP/51DAP	1.15693	0.467
53DAP/52DAP	1.01627	0.944
55DAP/53DAP	1.08794	0.848
57DAP/55DAP	1.15897	0.643
62DAP/57DAP	1.06267	0.833
68DAP/62DAP	0.98578	0.885
68DAP/14DAP	1.18176	0.2

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99482	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.38286	1
Mature Green Tomato/Ripe Tomato	1.20569	0.948
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.29629	0.224
Mature Eggplant/Ripe Tomato	0.05821

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	N/A	N/A
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	N/A	N/A
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	1.3604
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.1156
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.27654	0.426
WT/WTpooled	N/A	N/A

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	1.03439	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11268
DC3000/delta hrp 6h	1.07158	1
DC3000/delta hrp 12h	0.98444	1
DC3000/delta hrp 24h	0.8055	0.285

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.09336	0.556
DC3000 delta B/DC3000 delta AB	1.0029	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.71416	1
Exp 36h	0.72497	0.456
Exp 60h	0.75637	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99907	1
Var 0h	1.17433	0.782
Var 12h I row2-row1	0.9083	0.418
Var 12h NI row2-row1	0.94449	0.82
Var 36h I row2-row1	1.03007	1
Var 36h NI row2-row1	1.97653	1
Var 60h I row2-row1	0.98499	0.952
Var 60h NI row2-row1	0.94767	0.866
Time course 0hI-0hNI	1.02554	0.852
Time course 12hI-12hNI	1.04498	0.684
Time course 36hI-36hNI	0.94039	0.306
Time course 60hI-60hNI	0.98713	1

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)	0.95187	0.348
transgenic ySAMdc/azygous control (breaker)	1.28967	1
transgenic ySAMdc/azygous control (red)	1.04107	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99296	0.588

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25616	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.72697	0.088
Manapal/WT (break)	2.05312	0.14
Manapal/WT (red)	0.8214	0.503