Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.11.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95567	0.689
27DAP/17DAP	1.14652	0.92
39DAP/27DAP	1.03083	1
41DAP/39DAP	1.01006	0.944
42DAP/41DAP	1.05014	0.978
43DAP/42DAP	1.13877	0.848
47DAP/43DAP	1.2111	0.563
52DAP/47DAP	0.92936	0.769
57DAP/52DAP	1.07746	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97917	0.539
17DAP/reference	0.98268	0.858
27DAP/reference	0.97226	0.642
39DAP/reference	0.99176	0.885
41DAP/reference	0.98017	0.814
42DAP/reference	0.96762	0.188
43DAP/reference	0.96165	0.631
47DAP/reference	1.01149	1
52DAP/reference	0.91198	0.202
57DAP/reference	1.09446	0.122

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.63347	0.052
27DAP/17DAP	0.99232	0.969
39DAP/27DAP	1.16952	0.532
41DAP/39DAP	0.94974	0.934
42DAP/41DAP	0.99725	0.787
43DAP/42DAP	0.9679	0.751
47DAP/43DAP	1.21368	0.724
52DAP/47DAP	0.90683	0.677
57DAP/52DAP	1.58803	0.078
57DAP/7DAP	0.99091	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96898	0.168
17DAP/reference	0.88491	0.011
27DAP/reference	0.87919	0.01
39DAP/reference	0.961	0.017
41DAP/reference	0.93486	0.064
42DAP/reference	0.95153	0.063
43DAP/reference	0.8629	0.019
47DAP/reference	0.8744	0.05
52DAP/reference	0.87756	0.053
57DAP/reference	0.91636	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02708	0.626
17DAP/reference	1.06132	0.089
27DAP/reference	0.92561	0.134
39DAP/reference	0.90235	0.117
41DAP/reference	0.93483	0.164
42DAP/reference	0.96429	0.433
43DAP/reference	0.99835	0.814
47DAP/reference	0.97031	0.379
52DAP/reference	0.90057	0.005
57DAP/reference	1.01958	0.786

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02827	1
17DAP/reference	0.98704	0.751
27DAP/reference	0.92326	0.195
39DAP/reference	0.88713	0.033
41DAP/reference	0.89522	0.05
42DAP/reference	0.8271	0.016
43DAP/reference	0.88901	0.024
47DAP/reference	0.94926	0.168
52DAP/reference	0.93819	0.482
57DAP/reference	0.88544	0.06

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01896	0.966
26DAP/20DAP	1.02202	1
34DAP/26DAP	0.9957	0.97
51DAP/34DAP	1.19669	0.759
52DAP/51DAP	0.9452	1
53DAP/52DAP	1.59723	0.343
55DAP/53DAP	0.90664	0.675
57DAP/55DAP	1.28592	0.906
62DAP/57DAP	1.21834	0.902
68DAP/62DAP	1.10976	0.914
68DAP/14DAP	1.05497	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11871	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.75587	0.058
Mature Green Tomato/Ripe Tomato	0.6983	0.079
Immature Eggplant/Mature Eggplant	2.46168	0.05
Ripe Pepper/Ripe Tomato	0.33759	0.224
Mature Eggplant/Ripe Tomato	0.64586	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98768	0.961
1-1-2/M82	0.92614	1
12-2/M82	0.93977	0.74
12-4/M82	1.02394	1
1-3/M82	1.01152	1
2-1-1/M82	0.96957	1
2-1/M82	1.38328	1
2-6/M82	0.98924	1
3-2/M82	0.98331
4-1-1/M82	1.14967	1
4-1/M82	0.97574
4-3-2/M82	1.17126
4-3/M82	0.95943	1
5-3/M82	0.99872	1
6-2/M82	1.04193	1
6-3/M82	0.99918	1
7-1/M82	0.96139	0.803
7-2/M82	0.96861	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.05672	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.38192	1
IL12-4/WTpooled	1.07129	0.839
IL1-4/WTpooled	0.91229
WT/WTpooled	0.98186	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97107	1
DC3000/delta hrp 6h	1.21807	1
DC3000/delta hrp 12h	0.96431	1
DC3000/delta hrp 24h	1.05267	0.62

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	1.02441	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.83744	1
Exp 36h	1.2418	0.693
Exp 60h	0.9747	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9603	1
Var 0h	1.07977	0.98
Var 12h I row2-row1	0.9487	0.627
Var 12h NI row2-row1	0.74496	0.394
Var 36h I row2-row1	1.12179	1
Var 36h NI row2-row1	1.13321	1
Var 60h I row2-row1	0.84027	0.285
Var 60h NI row2-row1	1.24724	0.904
Time course 0hI-0hNI	1.08286	0.833
Time course 12hI-12hNI	0.94701	0.739
Time course 36hI-36hNI	0.90688	0.323
Time course 60hI-60hNI	1.27291	0.025

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)	1.67055	0.372
transgenic ySAMdc/azygous control (breaker)	0.53334	0.132
transgenic ySAMdc/azygous control (red)	1.24623	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02337	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82508	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.1063	0.307
Manapal/WT (break)	0.93924	1
Manapal/WT (red)	0.86162	0.229