Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.10.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.62604	0.211
27DAP/17DAP	1.36051	0.653
39DAP/27DAP	2.37107	0.344
41DAP/39DAP	1.04015	0.929
42DAP/41DAP	1.07899	0.916
43DAP/42DAP	0.91818	0.713
47DAP/43DAP	1.39688	0.216
52DAP/47DAP	0.87367	0.643
57DAP/52DAP	1.27249	0.892

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96929	0.317
17DAP/reference	1.09473	0.201
27DAP/reference	0.98482	0.694
39DAP/reference	1.07327	0.557
41DAP/reference	1.12072	0.093
42DAP/reference	1.0166	1
43DAP/reference	0.95688	0.429
47DAP/reference	1.02975	1
52DAP/reference	0.98102	0.504
57DAP/reference	0.85213	0.047

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89802	0.311
27DAP/17DAP	0.74362	0.363
39DAP/27DAP	1.17889	0.447
41DAP/39DAP	1.00549	1
42DAP/41DAP	0.93286	0.644
43DAP/42DAP	1.17702	0.162
47DAP/43DAP	1.02155	0.99
52DAP/47DAP	1.02185	0.945
57DAP/52DAP	0.91355	0.514
57DAP/7DAP	0.86408	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86877	0.129
17DAP/reference	0.97642	0.447
27DAP/reference	1.16084	0.301
39DAP/reference	1.30455	0.09
41DAP/reference	1.40469	0.113
42DAP/reference	1.13299	0.405
43DAP/reference	1.25286	0.099
47DAP/reference	0.94933	0.504
52DAP/reference	1.14651	0.308
57DAP/reference	1.0535	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99845	0.869
17DAP/reference	1.15542	0.243
27DAP/reference	1.23152	0.116
39DAP/reference	1.28843	0.037
41DAP/reference	0.94412	0.322
42DAP/reference	0.9	0.169
43DAP/reference	1.28813	0.09
47DAP/reference	0.9634	0.379
52DAP/reference	1.0796	0.498
57DAP/reference	1.06262	0.868

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89772	0.119
17DAP/reference	1.07606	0.627
27DAP/reference	1.22338	0.081
39DAP/reference	1.04841	0.563
41DAP/reference	1.11212	0.319
42DAP/reference	1.08012	0.648
43DAP/reference	1.01933	1
47DAP/reference	1.10015	0.077
52DAP/reference	0.97606	0.69
57DAP/reference	1.24569	0.058

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89051	1
26DAP/20DAP	0.9494	1
34DAP/26DAP	1.34128	1
51DAP/34DAP	0.67401	0.436
52DAP/51DAP	0.92823	1
53DAP/52DAP	1.21358	0.049
55DAP/53DAP	1.0925	0.671
57DAP/55DAP	1.16234	0.87
62DAP/57DAP	0.92077	0.466
68DAP/62DAP	0.79737	0.144
68DAP/14DAP	0.95524	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98715	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.92659	0.522
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.45574	0.224
Mature Eggplant/Ripe Tomato	0.48668	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05115	0.877
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.09125	1
1-3/M82	0.84718	0.376
2-1-1/M82	1.20505	1
2-1/M82	1.18328
2-6/M82	0.89844
3-2/M82	0.83115
4-1-1/M82	1.28333	0.72
4-1/M82	N/A	N/A
4-3-2/M82	0.82544
4-3/M82	1.18606
5-3/M82	0.97375	1
6-2/M82	0.95675	1
6-3/M82	1.06228	0.971
7-1/M82	N/A	N/A
7-2/M82	0.87091	0.796
9-3-2/M82	1.07381	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.53593	0.243
IL2-6/WTpooled	0.94349	1
IL7-5/WTpooled	0.79495	1
IL7-3/WTpooled	1.21835	1
IL12-4/WTpooled	1.02069	0.839
IL1-4/WTpooled	0.99348	1
WT/WTpooled	0.90911	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	1.13351	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96397	1
DC3000/delta hrp 6h	0.98768	0.95
DC3000/delta hrp 12h	1.04522	1
DC3000/delta hrp 24h	1.13439	0.308

Experiment: DC3000 effector mutants

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

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.10702	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94585	1
Var 0h	0.92668	0.933
Var 12h I row2-row1	1.14616	0.613
Var 12h NI row2-row1	0.99054	0.906
Var 36h I row2-row1	0.92049	0.805
Var 36h NI row2-row1	0.96073	0.478
Var 60h I row2-row1	1.02795	1
Var 60h NI row2-row1	1.14045	1
Time course 0hI-0hNI	1.04807	0.799
Time course 12hI-12hNI	1.1047	0.774
Time course 36hI-36hNI	0.86893	0.058
Time course 60hI-60hNI	0.57993	0.006

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)	1.04717	0.278
transgenic ySAMdc/azygous control (breaker)	1.07022	1
transgenic ySAMdc/azygous control (red)	0.98765	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9428	0.034

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88083	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69509	0.172
Manapal/WT (break)	0.96267	1
Manapal/WT (red)	1.37686	0.413