Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.1.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.64527	0.157
27DAP/17DAP	0.7152	0.252
39DAP/27DAP	1.5735	0.217
41DAP/39DAP	1.84222	0.092
42DAP/41DAP	1.58924	0.286
43DAP/42DAP	1.78386	0.049
47DAP/43DAP	1.89037	0.187
52DAP/47DAP	1.40531	0.307
57DAP/52DAP	1.08844	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75388	0.045
17DAP/reference	1.00699	1
27DAP/reference	0.93684	0.484
39DAP/reference	1.56489	0.096
41DAP/reference	1.10528	0.221
42DAP/reference	2.75424	0.001
43DAP/reference	2.06884	0.007
47DAP/reference	4.42756	0.001
52DAP/reference	2.65028	0.007
57DAP/reference	2.18008	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18317	0.258
27DAP/17DAP	1.47263	0.035
39DAP/27DAP	2.80524	0.035
41DAP/39DAP	0.31236	0.013
42DAP/41DAP	6.65025	0.001
43DAP/42DAP	4.37118	0.013
47DAP/43DAP	0.95147	0.781
52DAP/47DAP	1.20926	0.616
57DAP/52DAP	1.07418	1
57DAP/7DAP	9.8188	0.207

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.60864	0.062
17DAP/reference	0.6208	0.012
27DAP/reference	0.88399	0.071
39DAP/reference	1.07424	0.57
41DAP/reference	0.58011	0.011
42DAP/reference	1.00916	0.531
43DAP/reference	0.82839	0.151
47DAP/reference	2.2556	0.022
52DAP/reference	0.67753	0.033
57DAP/reference	0.43071	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77777	0.051
17DAP/reference	0.86813	0.019
27DAP/reference	1.06923	0.67
39DAP/reference	1.38162	0.04
41DAP/reference	1.04999	1
42DAP/reference	1.16088	0.342
43DAP/reference	1.37459	0.429
47DAP/reference	1.61989	0.076
52DAP/reference	0.9937	0.666
57DAP/reference	1.44776	0.07

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.51063	0.022
17DAP/reference	0.65113	0.107
27DAP/reference	0.61463	0.034
39DAP/reference	0.73533	0.02
41DAP/reference	0.80398	0.086
42DAP/reference	1.90163	0.008
43DAP/reference	3.00072	0.007
47DAP/reference	4.5092	0.005
52DAP/reference	2.48174	0.045
57DAP/reference	2.39174	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08163	1
26DAP/20DAP	0.69496	0.244
34DAP/26DAP	1.17745	0.819
51DAP/34DAP	3.282	0.037
52DAP/51DAP	0.72027	0.151
53DAP/52DAP	9.13635	0.026
55DAP/53DAP	0.99735	0.917
57DAP/55DAP	0.61148	0.023
62DAP/57DAP	N/A	N/A
68DAP/62DAP	2.28644	0.323
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.79084	0.034

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.43938	0.081
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	5.94513	0.05
Ripe Pepper/Ripe Tomato	0.1131	0.224
Mature Eggplant/Ripe Tomato	0.14778	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0174	1
1-1-2/M82	1.10182	1
12-2/M82	1.02214	1
12-4/M82	0.86414	1
1-3/M82	0.75071	0.501
2-1-1/M82	0.73961	0.683
2-1/M82	1.3283
2-6/M82	0.90935	0.501
3-2/M82	N/A	N/A
4-1-1/M82	0.80023	1
4-1/M82	0.92718	1
4-3-2/M82	0.95005	1
4-3/M82	0.81768	0.72
5-3/M82	1.2198	1
6-2/M82	0.98622	1
6-3/M82	1.02565	1
7-1/M82	1.0613	1
7-2/M82	0.8863	0.565
9-3-2/M82	1.21641	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72766
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.87867	1
IL12-4/WTpooled	0.66483	0.71
IL1-4/WTpooled	1.22078	1
WT/WTpooled	1.21015	0.686

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	1.46915	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93383	1
DC3000/delta hrp 6h	1.13233	0.857
DC3000/delta hrp 12h	1.42415	1
DC3000/delta hrp 24h	0.85341	0.131

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	1.04675	1
Exp 36h	1.19861	0.693
Exp 60h	1.23028	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03962	1
Var 0h	0.46183	0.332
Var 12h I row2-row1	1.20162	0.235
Var 12h NI row2-row1	1.19358	0.649
Var 36h I row2-row1	1.03592	1
Var 36h NI row2-row1	1.26886	0.253
Var 60h I row2-row1	0.67221	0.285
Var 60h NI row2-row1	1.14284	0.904
Time course 0hI-0hNI	1.03691	0.852
Time course 12hI-12hNI	0.92841	0.442
Time course 36hI-36hNI	1.03791	0.826
Time course 60hI-60hNI	2.65606	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)	1.59662	0.238
transgenic ySAMdc/azygous control (breaker)	1.03772	1
transgenic ySAMdc/azygous control (red)	0.95989	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07467	0.077

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.3045	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.5093	0.172
Manapal/WT (break)	1.08565	0.381
Manapal/WT (red)	0.95019	0.607