Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.4.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09144	0.851
27DAP/17DAP	1.22612	0.8
39DAP/27DAP	0.88884	0.522
41DAP/39DAP	1.23648	0.288
42DAP/41DAP	0.97808	1
43DAP/42DAP	1.19515	0.829
47DAP/43DAP	1.18611	0.469
52DAP/47DAP	0.80723	0.521
57DAP/52DAP	1.11729	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98844	0.645
17DAP/reference	1.01884	0.813
27DAP/reference	1.0405	0.357
39DAP/reference	1.16028	0.039
41DAP/reference	1.06827	0.338
42DAP/reference	0.99789	0.628
43DAP/reference	1.08778	0.287
47DAP/reference	1.03114	0.243
52DAP/reference	1.16917	0.134
57DAP/reference	1.04872	0.31

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96769	0.644
27DAP/17DAP	1.01048	0.973
39DAP/27DAP	1.03648	0.643
41DAP/39DAP	0.96901	0.945
42DAP/41DAP	0.95876	0.654
43DAP/42DAP	1.11246	0.034
47DAP/43DAP	1.01589	0.897
52DAP/47DAP	0.96968	0.763
57DAP/52DAP	0.94978	0.498
57DAP/7DAP	0.97619	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82887	0.073
17DAP/reference	0.73618	0.011
27DAP/reference	0.72796	0.01
39DAP/reference	0.79229	0.011
41DAP/reference	0.78966	0.024
42DAP/reference	0.75937	0.012
43DAP/reference	0.65984	0.011
47DAP/reference	0.77261	0.057
52DAP/reference	0.70052	0.013
57DAP/reference	0.75091	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98154	0.77
17DAP/reference	0.97645	0.461
27DAP/reference	0.95244	0.269
39DAP/reference	0.99504	0.702
41DAP/reference	0.92521	0.218
42DAP/reference	0.88371	0.032
43DAP/reference	0.97998	0.581
47DAP/reference	0.95231	0.221
52DAP/reference	0.82188	0.259
57DAP/reference	1.03695	0.755

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79285	0.038
17DAP/reference	0.85449	0.071
27DAP/reference	0.78518	0.038
39DAP/reference	0.71734	0.017
41DAP/reference	0.8792	0.046
42DAP/reference	0.70846	0.014
43DAP/reference	0.89441	0.188
47DAP/reference	1.01875	1
52DAP/reference	0.75406	0.232
57DAP/reference	0.784	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01102	0.966
26DAP/20DAP	0.8976	0.512
34DAP/26DAP	1.03435	0.819
51DAP/34DAP	1.02577	0.775
52DAP/51DAP	0.96838	1
53DAP/52DAP	1.1034	0.444
55DAP/53DAP	0.97447	0.746
57DAP/55DAP	1.00318	1
62DAP/57DAP	1.51789
68DAP/62DAP	1.1486	0.5
68DAP/14DAP	0.87367	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77448	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.80317	0.276
Mature Green Tomato/Ripe Tomato	0.95646	0.715
Immature Eggplant/Mature Eggplant	2.21328	0.05
Ripe Pepper/Ripe Tomato	1.06843	1
Mature Eggplant/Ripe Tomato	0.7606

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03839	0.877
1-1-2/M82	1.00712	1
12-2/M82	0.95652	0.955
12-4/M82	0.93128	1
1-3/M82	0.96099	0.501
2-1-1/M82	1.04401	0.764
2-1/M82	1.53251	0.345
2-6/M82	0.94453	1
3-2/M82	1.02241	1
4-1-1/M82	0.86724	0.926
4-1/M82	0.99256	1
4-3-2/M82	1.00014	1
4-3/M82	1.04692	1
5-3/M82	0.95324	0.447
6-2/M82	1.06783	1
6-3/M82	1.03176	1
7-1/M82	0.97661	1
7-2/M82	1.0962	1
9-3-2/M82	0.71634

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.06935	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	5.03592	1
IL12-4/WTpooled	1.7474	0.525
IL1-4/WTpooled	2.47203
WT/WTpooled	0.91481	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	1.00083	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.20572	0.758
DC3000/delta hrp 6h	1.11942	1
DC3000/delta hrp 12h	0.94423	1
DC3000/delta hrp 24h	1.02718	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.27521	0.16
DC3000 delta B/DC3000 delta AB	1.05831	0.539

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.78956	0.235
Exp 36h	1.12336	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.32406	0.325
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.92615	0.314
transgenic ySAMdc/azygous control (breaker)	0.99237	1
transgenic ySAMdc/azygous control (red)	1.03712	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02663	0.13

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.36451	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.42527	0.105
Manapal/WT (break)	1.18356	1
Manapal/WT (red)	1.21616	0.413