Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.13.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09308	0.725
27DAP/17DAP	1.06203	0.874
39DAP/27DAP	1.069	0.906
41DAP/39DAP	0.95513	0.807
42DAP/41DAP	0.9351	1
43DAP/42DAP	1.03764	1
47DAP/43DAP	1.05035	0.95
52DAP/47DAP	0.95331	0.848
57DAP/52DAP	1.00167	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97648	0.465
17DAP/reference	1.08236	0.045
27DAP/reference	1.11341	0.156
39DAP/reference	1.10559	0.125
41DAP/reference	1.10969	0.073
42DAP/reference	1.07407	0.065
43DAP/reference	0.97592	0.728
47DAP/reference	1.08984	0.023
52DAP/reference	1.07243	0.633
57DAP/reference	1.0396	0.927

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05918	0.23
27DAP/17DAP	1.04839	0.852
39DAP/27DAP	0.95854	0.556
41DAP/39DAP	0.90782	0.662
42DAP/41DAP	1.00868	0.991
43DAP/42DAP	1.03695	0.413
47DAP/43DAP	0.96774	0.617
52DAP/47DAP	0.95288	0.634
57DAP/52DAP	1.02926	0.851
57DAP/7DAP	0.97236	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11664	0.368
17DAP/reference	1.39927	0.02
27DAP/reference	1.3785	0.02
39DAP/reference	1.73399	0.006
41DAP/reference	1.795	0.015
42DAP/reference	1.79812	0.01
43DAP/reference	2.16219	0.007
47DAP/reference	1.41852	0.224
52DAP/reference	1.62095	0.008
57DAP/reference	1.62151	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94774	0.238
17DAP/reference	1.04491	0.904
27DAP/reference	0.98282	0.554
39DAP/reference	0.94945	0.235
41DAP/reference	1.00301	0.666
42DAP/reference	1.02572	1
43DAP/reference	0.97639	0.607
47DAP/reference	1.11079	0.247
52DAP/reference	0.94901	0.047
57DAP/reference	0.9992	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23149	0.112
17DAP/reference	1.18519	0.456
27DAP/reference	1.75579	0.023
39DAP/reference	1.42373	0.025
41DAP/reference	1.34967	0.065
42DAP/reference	1.31647	0.103
43DAP/reference	1.22763	0.205
47DAP/reference	1.10749	0.014
52DAP/reference	1.76222	0.052
57DAP/reference	1.28545	0.298

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05305	0.878
26DAP/20DAP	1.11189	0.53
34DAP/26DAP	1.05738	1
51DAP/34DAP	1.04027	0.84
52DAP/51DAP	1.07019	0.662
53DAP/52DAP	1.01487	1
55DAP/53DAP	1.01746	0.994
57DAP/55DAP	0.89429	0.443
62DAP/57DAP	0.98233	0.994
68DAP/62DAP	1.21429	0.448
68DAP/14DAP	1.19266	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0294	0.7

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.06631	1
Mature Green Tomato/Ripe Tomato	0.95407	0.611
Immature Eggplant/Mature Eggplant	1.02062	0.554
Ripe Pepper/Ripe Tomato	0.23963	0.224
Mature Eggplant/Ripe Tomato	0.26066	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91723	0.944
1-1-2/M82	1.06504	1
12-2/M82	0.94937	0.955
12-4/M82	1.02332	1
1-3/M82	0.97637	0.441
2-1-1/M82	0.91044	0.683
2-1/M82	1.01105	1
2-6/M82	0.93252	1
3-2/M82	0.96833	1
4-1-1/M82	1.01504	1
4-1/M82	0.90665	1
4-3-2/M82	0.84943	0.698
4-3/M82	1.01882	1
5-3/M82	0.94363	1
6-2/M82	0.96855	1
6-3/M82	1.0001	1
7-1/M82	0.95943	0.803
7-2/M82	0.91181	0.796
9-3-2/M82	0.96135	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.09906	0.531
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.04567	1
IL12-4/WTpooled	1.05346	0.891
IL1-4/WTpooled	0.93074
WT/WTpooled	0.93946	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	1.1681	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03567	0.921
DC3000/delta hrp 6h	0.95468	0.95
DC3000/delta hrp 12h	1.02242	1
DC3000/delta hrp 24h	1.01387	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.21451	0.063
DC3000 delta B/DC3000 delta AB	1.24244	0.144

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97746	1
Exp 36h	0.6562	0.434
Exp 60h	0.87443	0.258

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97703	1
Var 0h	0.58844	0.98
Var 12h I row2-row1	1.20748	0.209
Var 12h NI row2-row1	0.99602	1
Var 36h I row2-row1	1.01746	1
Var 36h NI row2-row1	1.03957	1
Var 60h I row2-row1	1.06938	1
Var 60h NI row2-row1	1.14118	0.904
Time course 0hI-0hNI	1.01963	1
Time course 12hI-12hNI	1.00408	1
Time course 36hI-36hNI	1.0166	0.975
Time course 60hI-60hNI	1.70882	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)	1.079	0.397
transgenic ySAMdc/azygous control (breaker)	0.7341	0.139
transgenic ySAMdc/azygous control (red)	1.04389	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0106	0.723

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.68934	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.47237	0.172
Manapal/WT (break)	1.04565	1
Manapal/WT (red)	0.8763	0.274