Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.2.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97917	0.839
27DAP/17DAP	1.00514	1
39DAP/27DAP	0.91733	0.641
41DAP/39DAP	1.14103	0.758
42DAP/41DAP	0.9548	1
43DAP/42DAP	0.97975	0.925
47DAP/43DAP	0.87672	0.599
52DAP/47DAP	1.27478	0.449
57DAP/52DAP	0.92995	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03434	0.788
17DAP/reference	0.99894	1
27DAP/reference	1.0193	0.771
39DAP/reference	0.96964	0.475
41DAP/reference	0.92399	0.267
42DAP/reference	1.02881	0.287
43DAP/reference	1.02632	0.705
47DAP/reference	1.06498	0.223
52DAP/reference	0.97325	0.405
57DAP/reference	1.03297	0.511

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94266	0.509
27DAP/17DAP	1.04174	0.842
39DAP/27DAP	1.02072	0.758
41DAP/39DAP	0.99063	1
42DAP/41DAP	1.00595	1
43DAP/42DAP	0.96506	0.538
47DAP/43DAP	0.99617	0.99
52DAP/47DAP	0.99878	0.982
57DAP/52DAP	0.98755	0.75
57DAP/7DAP	1.12702	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96363	0.183
17DAP/reference	0.97049	0.144
27DAP/reference	0.98368	0.325
39DAP/reference	0.99676	0.64
41DAP/reference	0.96676	0.357
42DAP/reference	1.02388	0.405
43DAP/reference	1.01634	0.637
47DAP/reference	0.96398	0.128
52DAP/reference	0.94503	0.363
57DAP/reference	0.91981	0.036

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0693	0.098
17DAP/reference	1.11649	0.089
27DAP/reference	1.07199	0.31
39DAP/reference	1.01588	0.868
41DAP/reference	0.94985	0.242
42DAP/reference	0.98934	0.534
43DAP/reference	1.02823	0.713
47DAP/reference	0.96798	0.164
52DAP/reference	1.0255	0.596
57DAP/reference	1.02346	0.508

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9563	0.077
17DAP/reference	0.9792	0.615
27DAP/reference	0.9577	0.133
39DAP/reference	1.01924	0.633
41DAP/reference	0.95919	0.132
42DAP/reference	1.01081	0.893
43DAP/reference	0.95652	0.137
47DAP/reference	0.94924	0.207
52DAP/reference	0.97888	0.704
57DAP/reference	0.92356	0.074

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9951	1
26DAP/20DAP	0.94521	1
34DAP/26DAP	0.98447	1
51DAP/34DAP	1.02464	0.869
52DAP/51DAP	0.98885	1
53DAP/52DAP	0.99186	0.978
55DAP/53DAP	1.03569	0.981
57DAP/55DAP	1.08082	0.906
62DAP/57DAP	0.9052	0.162
68DAP/62DAP	1.00846	1
68DAP/14DAP	1.25071	0.436

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02651	0.782

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.09431	0.417
Mature Green Tomato/Ripe Tomato	0.91562	0.522
Immature Eggplant/Mature Eggplant	0.98404	1
Ripe Pepper/Ripe Tomato	1.50721	1
Mature Eggplant/Ripe Tomato	0.4544	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91825	0.934
1-1-2/M82	0.98798	1
12-2/M82	0.94876	0.955
12-4/M82	1.02121	1
1-3/M82	1.08143	0.479
2-1-1/M82	1.04763	0.764
2-1/M82	0.92014	1
2-6/M82	0.95807	1
3-2/M82	0.95051	1
4-1-1/M82	1.01299	1
4-1/M82	1.17393	0.853
4-3-2/M82	1.1039	1
4-3/M82	1.01251	1
5-3/M82	0.96409	1
6-2/M82	1.04518	1
6-3/M82	1.1186	1
7-1/M82	0.94301	1
7-2/M82	1.54665	1
9-3-2/M82	0.99951	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.7654	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.33094	1
IL12-4/WTpooled	1.1249	0.839
IL1-4/WTpooled	1.20229
WT/WTpooled	0.88034	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	1.24245	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07482	0.724
DC3000/delta hrp 6h	1.04265	1
DC3000/delta hrp 12h	1.12635	1
DC3000/delta hrp 24h	0.97656	0.875

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0721	0.183
DC3000 delta B/DC3000 delta AB	1.14209	0.298

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06024	1
Exp 36h	0.80955	0.539
Exp 60h	0.75485	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97902	1
Var 0h	1.06926	0.936
Var 12h I row2-row1	1.05772	0.692
Var 12h NI row2-row1	1.23976	1
Var 36h I row2-row1	1.0135	1
Var 36h NI row2-row1	0.83544	0.584
Var 60h I row2-row1	0.92902	0.582
Var 60h NI row2-row1	0.95717	0.932
Time course 0hI-0hNI	1.04696	0.852
Time course 12hI-12hNI	0.99213	1
Time course 36hI-36hNI	1.17081	0.005
Time course 60hI-60hNI	1.58989	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)	0.93525	0.529
transgenic ySAMdc/azygous control (breaker)	1.14205	0.248
transgenic ySAMdc/azygous control (red)	1.06253	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03814	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9206	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88541	1
Manapal/WT (break)	1.09201	1
Manapal/WT (red)	0.87938	0.503