Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.20.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07155	1
27DAP/17DAP	1.2731	0.746
39DAP/27DAP	0.85326	0.529
41DAP/39DAP	1.20081	0.85
42DAP/41DAP	1.01893	1
43DAP/42DAP	1.20389	1
47DAP/43DAP	1.11295	1
52DAP/47DAP	1.02291	0.75
57DAP/52DAP	1.08725	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97031	0.539
17DAP/reference	1.22459	0.021
27DAP/reference	1.10791	0.285
39DAP/reference	1.06962	0.368
41DAP/reference	1.17652	0.338
42DAP/reference	0.89155	0.032
43DAP/reference	1.10206	0.269
47DAP/reference	0.87382	0.055
52DAP/reference	0.87845	0.189
57DAP/reference	0.75433	0.056

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09275	0.5
27DAP/17DAP	1.12066	0.699
39DAP/27DAP	1.07825	0.659
41DAP/39DAP	0.92594	0.617
42DAP/41DAP	0.98101	0.768
43DAP/42DAP	1.03364	0.627
47DAP/43DAP	0.99687	0.989
52DAP/47DAP	1.06523	0.81
57DAP/52DAP	0.98607	0.813
57DAP/7DAP	1.31701	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9971	0.758
17DAP/reference	1.02927	0.822
27DAP/reference	0.92746	0.159
39DAP/reference	0.87507	0.056
41DAP/reference	1.00737	0.741
42DAP/reference	0.86754	0.073
43DAP/reference	0.95463	0.22
47DAP/reference	0.88724	0.293
52DAP/reference	0.96379	0.304
57DAP/reference	1.05232	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10641	0.484
17DAP/reference	1.03711	0.824
27DAP/reference	0.86757	0.139
39DAP/reference	0.83761	0.168
41DAP/reference	0.77712	0.067
42DAP/reference	0.75635	0.013
43DAP/reference	1.11438	0.489
47DAP/reference	0.88266	0.056
52DAP/reference	0.98954	0.619
57DAP/reference	1.28504	0.104

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03209	0.659
17DAP/reference	0.99869	0.778
27DAP/reference	0.94683	0.257
39DAP/reference	0.93162	0.199
41DAP/reference	0.96282	0.512
42DAP/reference	0.93875	0.552
43DAP/reference	0.96652	0.614
47DAP/reference	0.83692	0.183
52DAP/reference	0.89884	0.284
57DAP/reference	0.67507	0.051

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.18344	0.966
26DAP/20DAP	0.7838	0.317
34DAP/26DAP	1.18842	0.542
51DAP/34DAP	1.16472	0.706
52DAP/51DAP	1.02017	0.904
53DAP/52DAP	1.13126	0.697
55DAP/53DAP	1.14096	0.519
57DAP/55DAP	0.978	0.888
62DAP/57DAP	0.92344	0.871
68DAP/62DAP	0.90276	0.505
68DAP/14DAP	0.73338	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03973	0.496

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.82916
Mature Green Tomato/Ripe Tomato	1.24063	0.948
Immature Eggplant/Mature Eggplant	2.92899	0.05
Ripe Pepper/Ripe Tomato	0.52307	0.224
Mature Eggplant/Ripe Tomato	0.53497	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94397	0.944
1-1-2/M82	0.92805
12-2/M82	1.09497
12-4/M82	1.09821	1
1-3/M82	0.92888	1
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.91701	1
3-2/M82	1.05022
4-1-1/M82	1.05512
4-1/M82	0.79258	0.525
4-3-2/M82	0.62272
4-3/M82	0.9167	1
5-3/M82	0.97986	1
6-2/M82	N/A	N/A
6-3/M82	1.10011
7-1/M82	1.25622
7-2/M82	N/A	N/A
9-3-2/M82	0.71047	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.6737
IL7-5/WTpooled	1.40953
IL7-3/WTpooled	0.7017
IL12-4/WTpooled	1.02472	1
IL1-4/WTpooled	1.02694	1
WT/WTpooled	1.16159	0.89

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	0.99195	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06027	0.921
DC3000/delta hrp 6h	0.95823	0.95
DC3000/delta hrp 12h	1.05062	1
DC3000/delta hrp 24h	0.91495	0.323

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	0.94082	0.674

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.70289	1
Exp 36h	1.36747	1
Exp 60h	1.30174	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00337	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.10953	1
Var 12h NI row2-row1	1.08668	1
Var 36h I row2-row1	1.1255	0.742
Var 36h NI row2-row1	0.53758	0.645
Var 60h I row2-row1	0.99413	1
Var 60h NI row2-row1	1.12032	0.904
Time course 0hI-0hNI	0.9245	0.437
Time course 12hI-12hNI	1.11512	0.603
Time course 36hI-36hNI	1.32612	0.007
Time course 60hI-60hNI	1.35073	0.017

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)	1.31036	0.272
transgenic ySAMdc/azygous control (breaker)	0.91051	0.49
transgenic ySAMdc/azygous control (red)	0.86565	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97003	0.27

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04282	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81892	1
Manapal/WT (break)	0.83827	1
Manapal/WT (red)	0.9791	0.863