Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.11.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06894	0.977
27DAP/17DAP	1.14476	0.885
39DAP/27DAP	0.84645	0.495
41DAP/39DAP	1.45634	0.303
42DAP/41DAP	1.21863	0.786
43DAP/42DAP	0.95374	0.863
47DAP/43DAP	0.93982	0.779
52DAP/47DAP	1.62468	0.245
57DAP/52DAP	1.02553	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	N/A	N/A
17DAP/reference	N/A	N/A
27DAP/reference	0.64672	0.009
39DAP/reference	0.89129
41DAP/reference	1.71861	0.014
42DAP/reference	1.18897	0.119
43DAP/reference	0.08913
47DAP/reference	0.96569	0.366
52DAP/reference	N/A	N/A
57DAP/reference	0.7548

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9067	0.363
27DAP/17DAP	1.0059	0.969
39DAP/27DAP	1.0404	0.698
41DAP/39DAP	1.12047	0.774
42DAP/41DAP	1.05809	0.861
43DAP/42DAP	1.0375	0.746
47DAP/43DAP	1.01567	0.951
52DAP/47DAP	0.87911	0.814
57DAP/52DAP	1.04669	0.768
57DAP/7DAP	1.12556	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8454	0.108
17DAP/reference	0.85721	0.011
27DAP/reference	0.823	0.01
39DAP/reference	0.89021	0.011
41DAP/reference	0.84339	0.013
42DAP/reference	0.85971	0.011
43DAP/reference	0.75986	0.014
47DAP/reference	0.80958	0.222
52DAP/reference	0.75814	0.02
57DAP/reference	0.73612	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91811	0.475
17DAP/reference	0.97502	0.611
27DAP/reference	0.93971	0.467
39DAP/reference	0.85234	0.214
41DAP/reference	0.82781	0.091
42DAP/reference	0.90958
43DAP/reference	1.03582	0.986
47DAP/reference	N/A	N/A
52DAP/reference	0.9202	0.302
57DAP/reference	1.19781	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82136	0.035
17DAP/reference	0.99429	0.778
27DAP/reference	0.83406	0.036
39DAP/reference	0.82704	0.023
41DAP/reference	0.86878	0.021
42DAP/reference	0.88336	0.019
43DAP/reference	0.84737	0.023
47DAP/reference	0.97831	0.525
52DAP/reference	0.82617	0.186
57DAP/reference	0.81715	0.034

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01329	0.966
26DAP/20DAP	0.97617	1
34DAP/26DAP	1.22863	0.542
51DAP/34DAP	0.79947	0.059
52DAP/51DAP	1.04843	0.708
53DAP/52DAP	1.09413	0.712
55DAP/53DAP	1.16579	0.185
57DAP/55DAP	1.01989	0.97
62DAP/57DAP	1.07665	0.678
68DAP/62DAP	1.21867	0.472
68DAP/14DAP	1.31793	0.504

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91634	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.94535
Mature Green Tomato/Ripe Tomato	0.93831	0.487
Immature Eggplant/Mature Eggplant	1.3605	0.058
Ripe Pepper/Ripe Tomato	0.95004	1
Mature Eggplant/Ripe Tomato	1.02271	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94642	0.944
1-1-2/M82	0.89315	1
12-2/M82	1.16802	1
12-4/M82	0.89522	0.619
1-3/M82	0.84343	0.378
2-1-1/M82	1.07171	0.689
2-1/M82	1.2536	0.345
2-6/M82	1.01343	1
3-2/M82	0.9342	0.752
4-1-1/M82	1.09383	1
4-1/M82	0.83542	1
4-3-2/M82	0.96565	1
4-3/M82	0.94876	1
5-3/M82	0.98535	1
6-2/M82	0.97585	1
6-3/M82	0.98595	0.982
7-1/M82	1.0451
7-2/M82	0.98724	1
9-3-2/M82	0.79549	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.75868	0.321
IL2-6/WTpooled	0.71137	0.337
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.12091	0.362
IL12-4/WTpooled	0.97777	1
IL1-4/WTpooled	0.89095	0.834
WT/WTpooled	1.0232	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	1.21625	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04241	0.914
DC3000/delta hrp 6h	0.77955	0.95
DC3000/delta hrp 12h	1.21536	1
DC3000/delta hrp 24h	1.04081	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13483	0.046
DC3000 delta B/DC3000 delta AB	1.03213	0.646

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03357	1
Exp 36h	N/A	N/A
Exp 60h	1.30234	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01086	1
Var 0h	1.55158	0.936
Var 12h I row2-row1	1.10556	0.216
Var 12h NI row2-row1	1.11405	1
Var 36h I row2-row1	0.96175	1
Var 36h NI row2-row1	0.81977	0.549
Var 60h I row2-row1	1.47617	0.562
Var 60h NI row2-row1	1.24514	0.904
Time course 0hI-0hNI	1.06052	0.852
Time course 12hI-12hNI	1.0244	0.861
Time course 36hI-36hNI	1.02062	0.722
Time course 60hI-60hNI	1.21674	0.029

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)	0.84796	0.348
transgenic ySAMdc/azygous control (breaker)	1.53321	0.178
transgenic ySAMdc/azygous control (red)	0.95312	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89537	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69617	1
Manapal/WT (break)	0.64839	0.299
Manapal/WT (red)	0.89614	0.315