Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.3.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29576	0.23
27DAP/17DAP	1.5807	0.362
39DAP/27DAP	0.93898	0.62
41DAP/39DAP	1.38782	0.603
42DAP/41DAP	1.14782	0.908
43DAP/42DAP	1.66077	0.14
47DAP/43DAP	1.44116	0.459
52DAP/47DAP	0.87976	0.662
57DAP/52DAP	0.83074	0.79

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02793	0.928
17DAP/reference	1.01685	0.565
27DAP/reference	1.01577	0.735
39DAP/reference	0.98974
41DAP/reference	1.21685	0.393
42DAP/reference	1.00236	0.665
43DAP/reference	1.43586
47DAP/reference	1.19471	0.013
52DAP/reference	1.0776	0.576
57DAP/reference	1.25614

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86714	0.388
27DAP/17DAP	1.12066	0.885
39DAP/27DAP	1.40277	0.084
41DAP/39DAP	0.94927	0.934
42DAP/41DAP	1.09498	0.727
43DAP/42DAP	1.38693	0.035
47DAP/43DAP	1.05534	0.772
52DAP/47DAP	1.06215	0.823
57DAP/52DAP	1.03265	1
57DAP/7DAP	1.38359	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85422	0.122
17DAP/reference	0.77553	0.021
27DAP/reference	0.88091	0.062
39DAP/reference	0.76574	0.012
41DAP/reference	0.73218	0.02
42DAP/reference	0.67634	0.01
43DAP/reference	0.73067	0.014
47DAP/reference	0.87477	0.168
52DAP/reference	0.66508	0.019
57DAP/reference	0.64557	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06488	0.501
17DAP/reference	1.15032	0.11
27DAP/reference	1.10073	0.316
39DAP/reference	1.11745	0.132
41DAP/reference	1.11456	0.491
42DAP/reference	1.00084	0.723
43DAP/reference	1.08923	0.407
47DAP/reference	0.9971	0.73
52DAP/reference	1.20756	0.006
57DAP/reference	1.17682	0.035

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87987	0.214
17DAP/reference	0.92891	0.305
27DAP/reference	0.89369	0.089
39DAP/reference	0.78242	0.015
41DAP/reference	0.91358	0.064
42DAP/reference	0.944	0.361
43DAP/reference	0.91426	0.281
47DAP/reference	1.03049	0.934
52DAP/reference	1.05349	0.965
57DAP/reference	1.09776	0.878

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91028	0.997
26DAP/20DAP	0.96961	1
34DAP/26DAP	0.88349
51DAP/34DAP	1.68729	0.785
52DAP/51DAP	1.14137	0.888
53DAP/52DAP	0.76277	0.179
55DAP/53DAP	0.8952	0.5
57DAP/55DAP	0.81912	0.437
62DAP/57DAP	0.97827	0.994
68DAP/62DAP	0.73619	0.07
68DAP/14DAP	0.9247	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99746	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.00442	1
Ripe Pepper/Ripe Tomato	0.14434	0.224
Mature Eggplant/Ripe Tomato	0.36556	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03411	0.877
1-1-2/M82	0.99627	1
12-2/M82	1.0369	1
12-4/M82	0.79854	1
1-3/M82	0.86272	0.33
2-1-1/M82	0.74948	0.784
2-1/M82	1.07278	1
2-6/M82	1.10386	0.452
3-2/M82	0.96538
4-1-1/M82	1.00317	1
4-1/M82	1.11541
4-3-2/M82	1.12758	0.241
4-3/M82	1.0932	1
5-3/M82	0.97634	1
6-2/M82	1.0152
6-3/M82	0.85452
7-1/M82	N/A	N/A
7-2/M82	1.09202	0.385
9-3-2/M82	1.09335

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.6793
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.604
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.61062
IL1-4/WTpooled	1.2703	1
WT/WTpooled	0.98727	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	1.22977	0.148

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03804	0.921
DC3000/delta hrp 6h	1.11781	1
DC3000/delta hrp 12h	1.0603	1
DC3000/delta hrp 24h	0.83678	0.121

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	1.9439	0.115

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.17014	1
Exp 36h	1.57301	1
Exp 60h	1.3542	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.07586	1
Var 0h	0.49248	0.933
Var 12h I row2-row1	0.94146	0.627
Var 12h NI row2-row1	1.34555	1
Var 36h I row2-row1	1.14831	0.298
Var 36h NI row2-row1	0.96589	0.791
Var 60h I row2-row1	1.0046	1
Var 60h NI row2-row1	0.99197	1
Time course 0hI-0hNI	1.14512	0.833
Time course 12hI-12hNI	0.98083	0.864
Time course 36hI-36hNI	1.31412	0.009
Time course 60hI-60hNI	2.37032	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)	0.88941	0.286
transgenic ySAMdc/azygous control (breaker)	0.94561	0.49
transgenic ySAMdc/azygous control (red)	0.97537	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98926	0.609

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.26736	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.3296	0.307
Manapal/WT (break)	1.41455	0.381
Manapal/WT (red)	1.31406	1