Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.1.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16868	0.755
27DAP/17DAP	1.26086	0.781
39DAP/27DAP	0.96004	0.7
41DAP/39DAP	0.97883	0.92
42DAP/41DAP	0.95657	1
43DAP/42DAP	1.14126	0.875
47DAP/43DAP	0.92448	0.71
52DAP/47DAP	0.91118	0.75
57DAP/52DAP	0.77543	0.687

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79407	0.025
17DAP/reference	0.90838	0.158
27DAP/reference	1.06065	0.569
39DAP/reference	0.97645	0.68
41DAP/reference	0.91076	0.267
42DAP/reference	0.94745	0.163
43DAP/reference	1.00243	0.904
47DAP/reference	1.05437	0.728
52DAP/reference	1.02979	1
57DAP/reference	1.09604	0.405

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04316	1
27DAP/17DAP	1.09508	0.788
39DAP/27DAP	0.86789	0.377
41DAP/39DAP	0.87427	0.446
42DAP/41DAP	1.16239	0.773
43DAP/42DAP	0.79391	0.038
47DAP/43DAP	0.96899	0.846
52DAP/47DAP	1.23671	0.552
57DAP/52DAP	1.57514	0.1
57DAP/7DAP	1.20418

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76888	0.122
17DAP/reference	0.83646	0.049
27DAP/reference	0.82832	0.01
39DAP/reference	0.88886	0.146
41DAP/reference	0.86114	0.153
42DAP/reference	0.86401	0.019
43DAP/reference	0.78075	0.028
47DAP/reference	0.97973	0.671
52DAP/reference	0.76712	0.03
57DAP/reference	0.75205	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96385	0.639
17DAP/reference	0.93588	0.367
27DAP/reference	0.9105	0.269
39DAP/reference	0.95204	0.289
41DAP/reference	0.88099	0.103
42DAP/reference	0.85327	0.067
43DAP/reference	1.02342	0.831
47DAP/reference	0.84146	0.055
52DAP/reference	0.84518	0.187
57DAP/reference	0.86412	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8586	0.092
17DAP/reference	1.06029	0.431
27DAP/reference	0.82219	0.051
39DAP/reference	0.91556	0.133
41DAP/reference	0.88758	0.107
42DAP/reference	0.89127	0.287
43DAP/reference	0.90476	0.131
47DAP/reference	0.95638	0.383
52DAP/reference	0.86904	0.296
57DAP/reference	0.98285	0.643

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.30361	0.966
26DAP/20DAP	0.80087	1
34DAP/26DAP	1.12969	0.819
51DAP/34DAP	0.55452	0.059
52DAP/51DAP	1.09874	1
53DAP/52DAP	1.04205	1
55DAP/53DAP	0.93971	0.735
57DAP/55DAP	1.1848	0.906
62DAP/57DAP	0.61861
68DAP/62DAP	1.39397	0.085
68DAP/14DAP	1.10666	0.656

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.92434	0.028

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.69273	0.219
Mature Green Tomato/Ripe Tomato	0.98594	0.898
Immature Eggplant/Mature Eggplant	1.31576	0.11
Ripe Pepper/Ripe Tomato	0.36981	1
Mature Eggplant/Ripe Tomato	0.71633	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.77491	0.651
1-1-2/M82	0.96185	1
12-2/M82	N/A	N/A
12-4/M82	1.21602	1
1-3/M82	1.04092	1
2-1-1/M82	0.95831	1
2-1/M82	N/A	N/A
2-6/M82	1.07128	0.695
3-2/M82	0.86345
4-1-1/M82	N/A	N/A
4-1/M82	1.16522	1
4-3-2/M82	1.22612
4-3/M82	1.12984	1
5-3/M82	0.99246	1
6-2/M82	0.89163	1
6-3/M82	1.06178	1
7-1/M82	1.28957	0.87
7-2/M82	0.9539	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96445	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.17639	0.75
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.76728
WT/WTpooled	N/A	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	0.7764	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97236	1
DC3000/delta hrp 6h	0.95209	0.95
DC3000/delta hrp 12h	1.00421	1
DC3000/delta hrp 24h	1.0584	0.535

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.61003
DC3000 delta B/DC3000 delta AB	0.72496

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.63199	1
Exp 36h	0.63427	0.449
Exp 60h	0.84987	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95673	1
Var 0h	1.08741	1
Var 12h I row2-row1	1.16326	0.242
Var 12h NI row2-row1	0.89456	0.713
Var 36h I row2-row1	0.84113	0.805
Var 36h NI row2-row1	1.69319	0.482
Var 60h I row2-row1	0.83789	0.374
Var 60h NI row2-row1	1.09547	1
Time course 0hI-0hNI	0.84332	0.13
Time course 12hI-12hNI	1.01634	0.876
Time course 36hI-36hNI	0.77629	0.023
Time course 60hI-60hNI	0.58362	0.007

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)	0.97373	0.485
transgenic ySAMdc/azygous control (breaker)	1.47105	0.172
transgenic ySAMdc/azygous control (red)	1.12576	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04907	0.11

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9726	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80018	0.172
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.70217	0.181