Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.8.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13684	0.67
27DAP/17DAP	1.28985	0.688
39DAP/27DAP	0.79937	0.522
41DAP/39DAP	0.97767	0.833
42DAP/41DAP	1.13267	0.933
43DAP/42DAP	1.12207	0.991
47DAP/43DAP	1.00292	0.89
52DAP/47DAP	0.73524	0.28
57DAP/52DAP	1.05885	0.995

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04204	0.441
17DAP/reference	1.0321	0.492
27DAP/reference	1.04907	0.548
39DAP/reference	0.97812	0.816
41DAP/reference	1.00357	1
42DAP/reference	0.97034	0.196
43DAP/reference	1.04985	0.34
47DAP/reference	1.00605	1
52DAP/reference	0.89513	0.102
57DAP/reference	0.9606	0.358

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85195	0.245
27DAP/17DAP	0.99729	0.969
39DAP/27DAP	1.06409	0.691
41DAP/39DAP	0.97721	0.968
42DAP/41DAP	1.04309	0.916
43DAP/42DAP	1.10446	0.324
47DAP/43DAP	1.02885	0.873
52DAP/47DAP	0.97134	0.902
57DAP/52DAP	0.98589	0.798
57DAP/7DAP	1.00024	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03583	0.747
17DAP/reference	0.95324	0.064
27DAP/reference	0.97125	0.303
39DAP/reference	0.96664	0.146
41DAP/reference	1.06035	0.171
42DAP/reference	1.07144	0.009
43DAP/reference	0.92016	0.008
47DAP/reference	0.98168	0.504
52DAP/reference	1.05234	0.266
57DAP/reference	1.05827	0.214

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98895	0.786
17DAP/reference	1.15764	0.056
27DAP/reference	1.04987	0.745
39DAP/reference	1.03269	0.868
41DAP/reference	0.89831	0.11
42DAP/reference	0.98142	0.534
43DAP/reference	1.09156	0.272
47DAP/reference	0.96494	0.368
52DAP/reference	1.04575	0.027
57DAP/reference	0.94665	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00173	1
17DAP/reference	1.00619	0.956
27DAP/reference	0.96236	0.257
39DAP/reference	0.98947	0.504
41DAP/reference	1.01449	0.796
42DAP/reference	0.95894	0.445
43DAP/reference	1.03359	0.768
47DAP/reference	0.97745	0.421
52DAP/reference	0.96187	0.596
57DAP/reference	1.18917	0.135

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0383	0.966
26DAP/20DAP	0.90491	0.317
34DAP/26DAP	1.15213	0.542
51DAP/34DAP	1.10527	0.293
52DAP/51DAP	1.01505	0.925
53DAP/52DAP	1.10542	0.502
55DAP/53DAP	0.98165	0.876
57DAP/55DAP	1.13425	0.474
62DAP/57DAP	0.90474	0.871
68DAP/62DAP	1.11986	0.657
68DAP/14DAP	1.2422	0.558

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.72699	0.052

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.11046	0.113
Mature Green Tomato/Ripe Tomato	0.87068	0.487
Immature Eggplant/Mature Eggplant	0.94071	0.594
Ripe Pepper/Ripe Tomato	1.13213	1
Mature Eggplant/Ripe Tomato	0.95876	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95374
1-1-2/M82	0.99419
12-2/M82	0.938
12-4/M82	0.96073	1
1-3/M82	1.00688	1
2-1-1/M82	1.3368
2-1/M82	N/A	N/A
2-6/M82	1.04958
3-2/M82	N/A	N/A
4-1-1/M82	1.05813
4-1/M82	0.96132
4-3-2/M82	0.91996	0.698
4-3/M82	0.9522
5-3/M82	1.00217	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.90657	0.881
9-3-2/M82	0.72615	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.08279	1
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	1.08749	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03077	0.921
DC3000/delta hrp 6h	1.06854	1
DC3000/delta hrp 12h	1.0079	1
DC3000/delta hrp 24h	1.08001	0.567

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91743	0.485
DC3000 delta B/DC3000 delta AB	0.99293	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13955	1
Exp 36h	0.9549	0.943
Exp 60h	0.94701	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00404	1
Var 0h	1.31142	0.936
Var 12h I row2-row1	1.1105	0.283
Var 12h NI row2-row1	0.91244	0.546
Var 36h I row2-row1	0.99579	1
Var 36h NI row2-row1	0.85754	0.645
Var 60h I row2-row1	1.10419	1
Var 60h NI row2-row1	1.09369	0.904
Time course 0hI-0hNI	1.09749	0.537
Time course 12hI-12hNI	1.22945	0.013
Time course 36hI-36hNI	1.2234	0.014
Time course 60hI-60hNI	1.30524	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)	0.866	0.33
transgenic ySAMdc/azygous control (breaker)	0.87654	0.251
transgenic ySAMdc/azygous control (red)	1.03143	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97747	0.149

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97538	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.62176	0.172
Manapal/WT (break)	0.82282	1
Manapal/WT (red)	1.14935	1