Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.6.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02781	0.901
27DAP/17DAP	1.05976	1
39DAP/27DAP	1.66108	0.114
41DAP/39DAP	0.95051	0.795
42DAP/41DAP	1.15098	0.954
43DAP/42DAP	1.192	0.991
47DAP/43DAP	1.21107	0.842
52DAP/47DAP	1.11368	0.982
57DAP/52DAP	1.13441	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97476	0.589
17DAP/reference	1.03589	0.74
27DAP/reference	1.03431	0.863
39DAP/reference	0.9193	0.437
41DAP/reference	1.10152	0.552
42DAP/reference	0.86006	0.038
43DAP/reference	1.02083	1
47DAP/reference	0.86614	0.09
52DAP/reference	0.9605	0.461
57DAP/reference	1.0625	0.433

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92641	0.526
27DAP/17DAP	0.958	0.887
39DAP/27DAP	1.29997	0.56
41DAP/39DAP	0.66873	0.016
42DAP/41DAP	1.26483	0.334
43DAP/42DAP	1.40047	0.25
47DAP/43DAP	0.9055	0.687
52DAP/47DAP	0.80083	0.617
57DAP/52DAP	1.26041	0.806
57DAP/7DAP	1.13723	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92255	0.224
17DAP/reference	0.78628	0.011
27DAP/reference	0.75191	0.01
39DAP/reference	0.77423	0.011
41DAP/reference	0.814	0.027
42DAP/reference	0.84972	0.16
43DAP/reference	0.73548	0.011
47DAP/reference	0.83065	0.293
52DAP/reference	0.71077	0.012
57DAP/reference	0.70712	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95155	0.58
17DAP/reference	0.93852	0.399
27DAP/reference	1.02788	1
39DAP/reference	1.06029	0.824
41DAP/reference	0.95672	0.403
42DAP/reference	0.87277	0.169
43DAP/reference	0.97732	0.607
47DAP/reference	1.02316	1
52DAP/reference	0.98622	0.576
57DAP/reference	1.18859	0.177

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8194	0.065
17DAP/reference	0.85753	0.217
27DAP/reference	0.79395	0.032
39DAP/reference	0.72733	0.007
41DAP/reference	0.84749	0.018
42DAP/reference	0.61293	0.014
43DAP/reference	0.76572	0.016
47DAP/reference	0.80492	0.006
52DAP/reference	0.59424	0.086
57DAP/reference	0.94944	0.444

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01258	0.966
26DAP/20DAP	1.1136	1
34DAP/26DAP	0.95201	0.898
51DAP/34DAP	0.8629	0.624
52DAP/51DAP	0.95536	1
53DAP/52DAP	1.35346	0.23
55DAP/53DAP	1.12877	0.991
57DAP/55DAP	1.63873	0.764
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.55479	0.713
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.27598	0.038

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.07284	0.149
Immature Eggplant/Mature Eggplant	1.81733
Ripe Pepper/Ripe Tomato	1.64597
Mature Eggplant/Ripe Tomato	0.64705	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.47327
1-1-2/M82	0.73562	1
12-2/M82	0.58891	0.955
12-4/M82	1.08267	1
1-3/M82	2.01805
2-1-1/M82	1.61381
2-1/M82	N/A	N/A
2-6/M82	0.75139	1
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	0.7493
5-3/M82	1.07256	1
6-2/M82	N/A	N/A
6-3/M82	0.53587
7-1/M82	1.06235
7-2/M82	0.52572
9-3-2/M82	0.99782	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09226
IL2-6/WTpooled	1.20425
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.24477
IL12-4/WTpooled	1.83442	0.646
IL1-4/WTpooled	0.78988	0.699
WT/WTpooled	1.24985	0.957

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	1.00667	1
DC3000/delta hrp 6h	1.8732	1
DC3000/delta hrp 12h	0.71511
DC3000/delta hrp 24h	1.11015	0.71

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	0.92332	1
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.86655
Var 0h	1.06644	0.421
Var 12h I row2-row1	0.87909	0.77
Var 12h NI row2-row1	0.81855	0.82
Var 36h I row2-row1	0.89181	1
Var 36h NI row2-row1	0.616
Var 60h I row2-row1	0.76747	0.952
Var 60h NI row2-row1	1.63923	0.904
Time course 0hI-0hNI	1.14993	1
Time course 12hI-12hNI	0.92573	0.426
Time course 36hI-36hNI	1.15652	0.881
Time course 60hI-60hNI	1.1575	0.575

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)	1.19388	0.571
transgenic ySAMdc/azygous control (breaker)	0.87561	0.49
transgenic ySAMdc/azygous control (red)	1.1791	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.58879	0.034

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.33409	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92881	1
Manapal/WT (break)	0.85336	1
Manapal/WT (red)	0.81868	0.242