Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.14.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78226	0.182
27DAP/17DAP	1.2006	0.839
39DAP/27DAP	1.40397	0.26
41DAP/39DAP	0.8911	0.558
42DAP/41DAP	1.039	1
43DAP/42DAP	0.84631	0.721
47DAP/43DAP	0.73362	0.255
52DAP/47DAP	1.17095	0.724
57DAP/52DAP	1.11249	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14145	0.23
17DAP/reference	1.08453	0.132
27DAP/reference	1.04454	0.672
39DAP/reference	1.13179	0.014
41DAP/reference	1.20599	0.024
42DAP/reference	1.15586	0.033
43DAP/reference	1.11068	0.269
47DAP/reference	1.0479	0.448
52DAP/reference	0.94098	0.292
57DAP/reference	0.82652	0.023

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81187	0.112
27DAP/17DAP	1.01124	1
39DAP/27DAP	1.0545	0.718
41DAP/39DAP	0.9326	0.68
42DAP/41DAP	0.98043	0.787
43DAP/42DAP	1.02233	0.83
47DAP/43DAP	0.97602	0.928
52DAP/47DAP	0.99728	0.925
57DAP/52DAP	0.87267	0.237
57DAP/7DAP	1.00767	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12546	0.36
17DAP/reference	1.31778	0.026
27DAP/reference	1.15868	0.088
39DAP/reference	1.20822	0.05
41DAP/reference	1.14902	0.314
42DAP/reference	1.15948	0.405
43DAP/reference	1.21581	0.226
47DAP/reference	1.27432	0.024
52DAP/reference	0.97552	0.523
57DAP/reference	1.10013	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41007	0.056
17DAP/reference	1.18364	0.094
27DAP/reference	1.2824	0.153
39DAP/reference	1.35595	0.099
41DAP/reference	1.26428	0.215
42DAP/reference	1.19148	0.24
43DAP/reference	1.39788	0.073
47DAP/reference	1.16292	0.04
52DAP/reference	1.22049	0.013
57DAP/reference	1.60934	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12395	0.185
17DAP/reference	1.08871	0.689
27DAP/reference	1.39587	0.045
39DAP/reference	1.12794	0.087
41DAP/reference	1.12445	0.286
42DAP/reference	1.22131	0.086
43DAP/reference	1.11233	0.445
47DAP/reference	1.02641	1
52DAP/reference	1.29267	0.205
57DAP/reference	0.82006	0.102

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21565	0.966
26DAP/20DAP	1.49483	0.259
34DAP/26DAP	0.97054	0.944
51DAP/34DAP	1.62462	0.033
52DAP/51DAP	0.92798	1
53DAP/52DAP	1.15379	0.37
55DAP/53DAP	0.90396	0.462
57DAP/55DAP	0.89199	0.539
62DAP/57DAP	0.74983	0.005
68DAP/62DAP	1.05579	0.787
68DAP/14DAP	1.05896	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75844	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.92657	0.527
Mature Green Tomato/Ripe Tomato	1.51984	0.02
Immature Eggplant/Mature Eggplant	1.99056	0.05
Ripe Pepper/Ripe Tomato	1.5296	1
Mature Eggplant/Ripe Tomato	2.10705	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.88992	0.754
12-2/M82	N/A	N/A
12-4/M82	1.13651	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.04692
4-1-1/M82	N/A	N/A
4-1/M82	0.98591	1
4-3-2/M82	1.18539	1
4-3/M82	1.12517
5-3/M82	1.14575
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.95832
7-2/M82	N/A	N/A
9-3-2/M82	1.26934	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91281	1
IL2-6/WTpooled	1.14889	0.415
IL7-5/WTpooled	1.19351	0.792
IL7-3/WTpooled	0.94592	0.294
IL12-4/WTpooled	1.00255	1
IL1-4/WTpooled	0.99093	1
WT/WTpooled	1.02853	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	1.05592	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94817	1
DC3000/delta hrp 6h	1.04165	1
DC3000/delta hrp 12h	1.2791	1
DC3000/delta hrp 24h	1.09335	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14635	0.063
DC3000 delta B/DC3000 delta AB	1.41008	0.089

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01487	1
Exp 36h	1.09504	1
Exp 60h	1.415	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03298	1
Var 0h	0.71461	1
Var 12h I row2-row1	1.39278	0.506
Var 12h NI row2-row1	1.18447	0.281
Var 36h I row2-row1	1.04797	1
Var 36h NI row2-row1	1.00017	1
Var 60h I row2-row1	0.73051	0.439
Var 60h NI row2-row1	1.02118	1
Time course 0hI-0hNI	1.12293	0.662
Time course 12hI-12hNI	1.06545	0.682
Time course 36hI-36hNI	1.42087	0.007
Time course 60hI-60hNI	2.83758	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)	0.8213	0.315
transgenic ySAMdc/azygous control (breaker)	0.7823	0.15
transgenic ySAMdc/azygous control (red)	1.16935	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01636	0.723

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.38167	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35333	0.096
Manapal/WT (break)	1.15287	0.381
Manapal/WT (red)	1.04512	1