Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.2.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11745	0.786
27DAP/17DAP	1.01553	1
39DAP/27DAP	0.72566	0.298
41DAP/39DAP	1.02499	0.941
42DAP/41DAP	1.29202	0.912
43DAP/42DAP	1.05079	1
47DAP/43DAP	1.5682	0.469
52DAP/47DAP	1.00617	0.875
57DAP/52DAP	1.32485	0.677

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92784	0.159
17DAP/reference	1.03338	0.508
27DAP/reference	1.0232	0.721
39DAP/reference	0.96174	0.587
41DAP/reference	1.0773	0.145
42DAP/reference	0.84022	0.001
43DAP/reference	1.00725	0.982
47DAP/reference	0.92902	0.046
52DAP/reference	1.01402	0.668
57DAP/reference	0.97012	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16162	0.65
27DAP/17DAP	1.1579	0.831
39DAP/27DAP	0.74865
41DAP/39DAP	0.82546	0.599
42DAP/41DAP	0.66923	0.248
43DAP/42DAP	1.3288	0.112
47DAP/43DAP	0.99514	0.947
52DAP/47DAP	0.97325	0.905
57DAP/52DAP	1.08554
57DAP/7DAP	1.11916	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99744	0.758
17DAP/reference	1.05543	0.361
27DAP/reference	0.96768	0.375
39DAP/reference	1.05417	0.46
41DAP/reference	1.03277	1
42DAP/reference	1.12025	0.534
43DAP/reference	1.04486	0.873
47DAP/reference	0.95857	0.504
52DAP/reference	1.2526	0.052
57DAP/reference	1.17741	0.214

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93921	0.475
17DAP/reference	0.88468	0.092
27DAP/reference	1.04301	0.682
39DAP/reference	1.05867	0.705
41DAP/reference	0.99337	0.584
42DAP/reference	0.88326	0.121
43DAP/reference	0.91245	0.25
47DAP/reference	0.83572	0.018
52DAP/reference	0.9161	0.302
57DAP/reference	1.04772	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30552	0.444
17DAP/reference	0.8764	0.217
27DAP/reference	0.97747	0.691
39DAP/reference	1.26231	0.104
41DAP/reference	1.38035	0.162
42DAP/reference	1.18617	0.3
43DAP/reference	1.41142	0.1
47DAP/reference	0.91302	0.224
52DAP/reference	1.09277	0.89
57DAP/reference	1.12524	0.511

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.40843	0.966
26DAP/20DAP	0.68016	0.317
34DAP/26DAP	1.71279	0.819
51DAP/34DAP	1.49218
52DAP/51DAP	0.93151	1
53DAP/52DAP	1.11954	0.901
55DAP/53DAP	1.02318	0.951
57DAP/55DAP	1.4817	0.376
62DAP/57DAP	1.00025	1
68DAP/62DAP	1.26885	0.7
68DAP/14DAP	1.46791	0.113

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90401	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71635
Mature Green Tomato/Ripe Tomato	0.98228
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.97321	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.50678
1-1-2/M82	1.15323	0.977
12-2/M82	1.0804
12-4/M82	0.79514
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	0.76144
3-2/M82	N/A	N/A
4-1-1/M82	1.02009
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	0.83637	1
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	1.05523

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.7156	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	2.03832	1
IL12-4/WTpooled	1.35759
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	1.09794	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	0.77172	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92015	1
DC3000/delta hrp 6h	1.07933	1
DC3000/delta hrp 12h	0.94325	1
DC3000/delta hrp 24h	0.69133	0.041

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	1.44181

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.86848	1
Exp 36h	0.70326	0.406
Exp 60h	0.80448	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97655	1
Var 0h	1.95199
Var 12h I row2-row1	0.94185	0.948
Var 12h NI row2-row1	0.6435	0.713
Var 36h I row2-row1	0.91268	1
Var 36h NI row2-row1	1.29547
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.03975	1
Time course 0hI-0hNI	0.85881	0.222
Time course 12hI-12hNI	0.91459	0.239
Time course 36hI-36hNI	0.70498	0.023
Time course 60hI-60hNI	0.32605	0.008

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)	0.95481	0.529
transgenic ySAMdc/azygous control (breaker)	0.90315	0.49
transgenic ySAMdc/azygous control (red)	0.9679	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96712	0.126

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.4271	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.39621	0.096
Manapal/WT (break)	1.05081	1
Manapal/WT (red)	1.85193	0.15