Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.20.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27721	0.646
27DAP/17DAP	1.21289	0.804
39DAP/27DAP	0.7967	0.414
41DAP/39DAP	1.47273	0.344
42DAP/41DAP	0.84601	0.774
43DAP/42DAP	0.97053	0.925
47DAP/43DAP	1.20315	0.584
52DAP/47DAP	0.687	0.407
57DAP/52DAP	1.12432	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88209	0.075
17DAP/reference	1.1473	0.546
27DAP/reference	1.08032	0.612
39DAP/reference	0.99169	0.841
41DAP/reference	1.05068	0.855
42DAP/reference	0.90561	0.075
43DAP/reference	1.06469	0.646
47DAP/reference	0.883	0.025
52DAP/reference	0.99919	0.73
57DAP/reference	0.97762	0.526

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35297	0.252
27DAP/17DAP	1.15	0.842
39DAP/27DAP	0.95069	0.852
41DAP/39DAP	1.20605	0.909
42DAP/41DAP	0.82409	0.305
43DAP/42DAP	0.78907	0.431
47DAP/43DAP	1.34497	0.475
52DAP/47DAP	1.28065	0.927
57DAP/52DAP	1.15927	0.679
57DAP/7DAP	0.89848	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82645	0.1
17DAP/reference	0.80037	0.031
27DAP/reference	0.84353	0.062
39DAP/reference	0.59803	0.012
41DAP/reference	0.7305	0.04
42DAP/reference	0.65407	0.01
43DAP/reference	0.70457	0.013
47DAP/reference	0.78526	0.168
52DAP/reference	0.81298	0.09
57DAP/reference	0.77844	0.016

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00505	0.72
17DAP/reference	0.9827	0.642
27DAP/reference	0.89301	0.34
39DAP/reference	0.80629	0.126
41DAP/reference	0.74468	0.017
42DAP/reference	0.72073	0.028
43DAP/reference	1.03362	0.814
47DAP/reference	0.87269	0.079
52DAP/reference	0.77801	0.031
57DAP/reference	1.05141	0.908

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01985	1
17DAP/reference	0.90207	0.234
27DAP/reference	0.8056	0.063
39DAP/reference	0.79765	0.021
41DAP/reference	0.94854	0.459
42DAP/reference	0.93084	0.445
43DAP/reference	0.80816	0.073
47DAP/reference	0.88943	0.089
52DAP/reference	0.89727	0.262
57DAP/reference	0.68397	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09799	0.966
26DAP/20DAP	1.4063	0.558
34DAP/26DAP	1.22166	1
51DAP/34DAP	1.28416	0.326
52DAP/51DAP	1.37831	0.836
53DAP/52DAP	0.91142	0.715
55DAP/53DAP	0.86753	0.761
57DAP/55DAP	1.35146	0.968
62DAP/57DAP	0.83823	0.466
68DAP/62DAP	1.88839	0.206
68DAP/14DAP	1.04274	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7831

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.89384	0.287
Immature Eggplant/Mature Eggplant	8.05797	0.05
Ripe Pepper/Ripe Tomato	1.49648	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.8943
12-2/M82	N/A	N/A
12-4/M82	0.69545
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	0.44618	1
4-3-2/M82	0.98613
4-3/M82	N/A	N/A
5-3/M82	1.37005
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.75542
9-3-2/M82	1.09655

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08084	0.493
IL2-6/WTpooled	1.03816	1
IL7-5/WTpooled	0.82042	1
IL7-3/WTpooled	0.83751	0.298
IL12-4/WTpooled	1.14952	0.516
IL1-4/WTpooled	0.92797	0.834
WT/WTpooled	0.92912	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	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	0.99362	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.14431	1
DC3000/delta hrp 24h	1.31212	0.056

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	1.22967	1
Exp 36h	1.87492	1
Exp 60h	1.57576	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.45633
Var 0h	N/A	N/A
Var 12h I row2-row1	0.70196	1
Var 12h NI row2-row1	0.37324	1
Var 36h I row2-row1	3.43874	1
Var 36h NI row2-row1	2.18274	0.852
Var 60h I row2-row1	0.70794	0.285
Var 60h NI row2-row1	1.68886	1
Time course 0hI-0hNI	4.82222	0.662
Time course 12hI-12hNI	2.46115	0.024
Time course 36hI-36hNI	1.73602	0.01
Time course 60hI-60hNI	70.8264	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)	1.0212	0.748
transgenic ySAMdc/azygous control (breaker)	1.27888	0.248
transgenic ySAMdc/azygous control (red)	1.0389	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96802	0.295

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.1582	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88897	1
Manapal/WT (break)	0.93515	0.333
Manapal/WT (red)	0.95776	0.728