Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-1.4.16.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09095	0.863
27DAP/17DAP	1.22856	0.849
39DAP/27DAP	0.75857	0.397
41DAP/39DAP	0.54271	0.281
42DAP/41DAP	1.16189	0.986
43DAP/42DAP	0.82446	0.669
47DAP/43DAP	1.09738	0.842
52DAP/47DAP	0.78769	0.498
57DAP/52DAP	1.2674	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0246	0.707
17DAP/reference	0.90566	0.342
27DAP/reference	0.89138	0.257
39DAP/reference	0.91682	0.35
41DAP/reference	0.90523	0.114
42DAP/reference	0.86168	0.037
43DAP/reference	0.77483	0.024
47DAP/reference	0.85729	0.027
52DAP/reference	1.00339	0.689
57DAP/reference	1.03825	0.643

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88538	0.578
27DAP/17DAP	2.06163	0.831
39DAP/27DAP	0.87513	0.502
41DAP/39DAP	0.99196	1
42DAP/41DAP	0.89905	0.535
43DAP/42DAP	1.43667	0.162
47DAP/43DAP	0.76482	0.365
52DAP/47DAP	1.00397	0.93
57DAP/52DAP	2.02962	0.236
57DAP/7DAP	0.92515	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82887	0.091
17DAP/reference	0.91873	0.22
27DAP/reference	1.00328	0.748
39DAP/reference	0.72119	0.011
41DAP/reference	0.79639	0.034
42DAP/reference	0.75103	0.011
43DAP/reference	0.7056	0.025
47DAP/reference	0.98687	1
52DAP/reference	0.77279	0.031
57DAP/reference	0.86024	0.056

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04764	0.832
17DAP/reference	0.8344	0.083
27DAP/reference	0.91624	0.292
39DAP/reference	1.08066	0.935
41DAP/reference	0.88469	0.127
42DAP/reference	0.90655	0.261
43DAP/reference	0.90975	0.32
47DAP/reference	0.9155	0.328
52DAP/reference	1.00032	0.576
57DAP/reference	0.97039	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93659	0.335
17DAP/reference	1.03291	0.956
27DAP/reference	0.97997	0.594
39DAP/reference	0.90212	0.199
41DAP/reference	0.94681	0.459
42DAP/reference	1.13288	0.272
43DAP/reference	0.99434	0.767
47DAP/reference	0.98665	0.574
52DAP/reference	0.7851	0.088
57DAP/reference	1.11157	0.66

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08895	1
26DAP/20DAP	0.84347	1
34DAP/26DAP	1.40722	1
51DAP/34DAP	1.46999	0.535
52DAP/51DAP	1.14038	1
53DAP/52DAP	1.06771	0.868
55DAP/53DAP	0.83057	0.489
57DAP/55DAP	0.96726	0.872
62DAP/57DAP	1.2124	0.515
68DAP/62DAP	1.29561	0.89
68DAP/14DAP	0.96559	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12526	0.782

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	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.42004	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.76048	N/A
WT/WTpooled	1.33764	N/A

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	0.8961	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99952	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.04092	1
DC3000/delta hrp 24h	0.98961	0.91

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	N/A	N/A
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	0.971	N/A
Var 0h	0.86381	0.933
Var 12h I row2-row1	0.99319	N/A
Var 12h NI row2-row1	1.54426	1
Var 36h I row2-row1	1.27045	1
Var 36h NI row2-row1	1.10394	1
Var 60h I row2-row1	0.95902	N/A
Var 60h NI row2-row1	0.67094	1
Time course 0hI-0hNI	0.87423	0.325
Time course 12hI-12hNI	0.97163	0.87
Time course 36hI-36hNI	0.85039	0.023
Time course 60hI-60hNI	0.50079	0.009

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.43663	1
transgenic ySAMdc/azygous control (red)	1.15319	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92879	0.058

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16687	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10614	1
Manapal/WT (break)	1.14962	0.381
Manapal/WT (red)	N/A	N/A