Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.3.19.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.73493	0.075
27DAP/17DAP	0.98632	0.956
39DAP/27DAP	1.0727	1
41DAP/39DAP	1.02991	0.539
42DAP/41DAP	1.05048	1
43DAP/42DAP	1.00943	0.937
47DAP/43DAP	0.98724	0.716
52DAP/47DAP	1.23104	0.702
57DAP/52DAP	1.56573	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38314	0.03
17DAP/reference	1.1824	0.014
27DAP/reference	0.98763	0.741
39DAP/reference	1.06064	0.434
41DAP/reference	1.25857	0.073
42DAP/reference	1.25783	0.008
43DAP/reference	0.97179	0.675
47DAP/reference	1.03971	0.612
52DAP/reference	1.25697	0.021
57DAP/reference	0.85559	0.096

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95747	0.629
27DAP/17DAP	0.82394	0.684
39DAP/27DAP	0.99429	0.925
41DAP/39DAP	1.10033	0.887
42DAP/41DAP	0.8991	0.312
43DAP/42DAP	1.25397	0.382
47DAP/43DAP	0.87596	0.41
52DAP/47DAP	1.17138	0.586
57DAP/52DAP	1.13256	0.851
57DAP/7DAP	1.25082	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91469	0.296
17DAP/reference	0.87434	0.108
27DAP/reference	0.74822	0.015
39DAP/reference	1.03943	0.538
41DAP/reference	0.94792	0.326
42DAP/reference	0.9125	0.32
43DAP/reference	0.8956	0.151
47DAP/reference	0.88273	0.128
52DAP/reference	0.83602	0.038
57DAP/reference	0.94378	0.302

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21765	0.073
17DAP/reference	1.59827	0.009
27DAP/reference	1.28162	0.05
39DAP/reference	1.21444	0.097
41DAP/reference	1.40319	0.048
42DAP/reference	1.06941	0.5
43DAP/reference	1.19142	0.202
47DAP/reference	1.03093	0.795
52DAP/reference	1.20067	0.065
57DAP/reference	1.68401	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96919	0.566
17DAP/reference	1.00887	0.855
27DAP/reference	0.7808	0.051
39DAP/reference	1.00539	0.889
41DAP/reference	1.04722	0.961
42DAP/reference	1.06302	0.836
43DAP/reference	0.99613	0.738
47DAP/reference	1.16262	0.089
52DAP/reference	0.93598	0.493
57DAP/reference	1.58109	0.055

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.77639	0.024
26DAP/20DAP	1.07123	1
34DAP/26DAP	1.11033	0.819
51DAP/34DAP	1.37873	0.795
52DAP/51DAP	1.05258	0.51
53DAP/52DAP	1.40667	0.768
55DAP/53DAP	0.79417	0.325
57DAP/55DAP	0.99988	0.854
62DAP/57DAP	1.16902	0.8
68DAP/62DAP	0.7401	0.144
68DAP/14DAP	0.60123	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9957	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.96285	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.28969	0.224
Mature Eggplant/Ripe Tomato	0.43471	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.32734	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.15471	N/A
1-3/M82	N/A	N/A
2-1-1/M82	1.38801	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
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	N/A	N/A
5-3/M82	N/A	N/A
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08359	0.365
IL2-6/WTpooled	0.77448	0.383
IL7-5/WTpooled	1.08582	1
IL7-3/WTpooled	1.19827	0.362
IL12-4/WTpooled	1.03111	0.891
IL1-4/WTpooled	1.08626	1
WT/WTpooled	0.98196	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	1.0762	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98477	1
DC3000/delta hrp 6h	1.09965	1
DC3000/delta hrp 12h	0.97544	1
DC3000/delta hrp 24h	2.48647	0.046

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	7.64963	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02013	0.216
Exp 36h	0.98232	1
Exp 60h	0.70126	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04037	1
Var 0h	0.62941	0.933
Var 12h I row2-row1	1.05575	0.613
Var 12h NI row2-row1	0.91137	0.443
Var 36h I row2-row1	1.07742	1
Var 36h NI row2-row1	0.97641	0.852
Var 60h I row2-row1	0.9303	0.832
Var 60h NI row2-row1	1.116	0.904
Time course 0hI-0hNI	1.04256	0.719
Time course 12hI-12hNI	1.00329	1
Time course 36hI-36hNI	0.92079	0.202
Time course 60hI-60hNI	0.42056	0.006

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)	1.43705	0.36
transgenic ySAMdc/azygous control (breaker)	0.81021	0.251
transgenic ySAMdc/azygous control (red)	0.97675	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00779	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.49985	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8914	1
Manapal/WT (break)	1.23781	0.381
Manapal/WT (red)	1.25786	0.164