Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.4.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.73307	0.133
27DAP/17DAP	0.87814	0.751
39DAP/27DAP	0.66898	0.414
41DAP/39DAP	0.96921	0.897
42DAP/41DAP	1.09984	0.929
43DAP/42DAP	1.18341	0.906
47DAP/43DAP	1.20411	0.497
52DAP/47DAP	0.6357	0.214
57DAP/52DAP	1.04011	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91808	0.217
17DAP/reference	1.12094	0.015
27DAP/reference	1.05165	0.559
39DAP/reference	1.15002	0.191
41DAP/reference	1.11685	0.079
42DAP/reference	0.92285	0.034
43DAP/reference	1.09647	0.189
47DAP/reference	0.99395	0.602
52DAP/reference	0.8639	0.128
57DAP/reference	0.82049	0.033

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32818	0.069
27DAP/17DAP	1.12961	0.751
39DAP/27DAP	0.80058	0.037
41DAP/39DAP	0.89396	0.68
42DAP/41DAP	0.97868	0.751
43DAP/42DAP	1.14221	0.554
47DAP/43DAP	1.01801	0.963
52DAP/47DAP	0.899	0.617
57DAP/52DAP	0.91814	0.537
57DAP/7DAP	0.61979	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20088	0.185
17DAP/reference	1.44746	0.077
27DAP/reference	1.11068	0.371
39DAP/reference	1.24912	0.282
41DAP/reference	1.33866	0.08
42DAP/reference	1.06892	1
43DAP/reference	1.09127	0.83
47DAP/reference	0.93013	0.293
52DAP/reference	0.96105	0.398
57DAP/reference	1.13904	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3956	0.47
17DAP/reference	0.99445	0.766
27DAP/reference	1.00728	1
39DAP/reference	1.21977	0.449
41DAP/reference	1.00387	0.631
42DAP/reference	0.80741	0.014
43DAP/reference	0.88417	0.054
47DAP/reference	0.93338	0.227
52DAP/reference	1.01875	1
57DAP/reference	1.3471	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12448	0.386
17DAP/reference	1.08677	0.876
27DAP/reference	1.21297	0.425
39DAP/reference	1.18068	0.987
41DAP/reference	0.90646	0.371
42DAP/reference	0.94217	0.552
43DAP/reference	0.84124	0.179
47DAP/reference	1.02737	1
52DAP/reference	1.10209	0.609
57DAP/reference	0.61865	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22482	0.817
26DAP/20DAP	1.24488	0.818
34DAP/26DAP	1.16618	1
51DAP/34DAP	0.75612	0.205
52DAP/51DAP	1.0105	1
53DAP/52DAP	1.22118	0.537
55DAP/53DAP	0.90853	0.686
57DAP/55DAP	1.15064	1
62DAP/57DAP	0.97334	0.871
68DAP/62DAP	0.9521	0.81
68DAP/14DAP	0.84145	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.2979	0.099

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.8304
Mature Green Tomato/Ripe Tomato	2.91274	0.015
Immature Eggplant/Mature Eggplant	0.33839	0.096
Ripe Pepper/Ripe Tomato	0.18922
Mature Eggplant/Ripe Tomato	1.67626	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.72568	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.63152	0.31
IL12-4/WTpooled	0.85637	0.71
IL1-4/WTpooled	0.86618
WT/WTpooled	1.22184	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	0.95173	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00296	1
DC3000/delta hrp 6h	0.88514	0.95
DC3000/delta hrp 12h	0.87832	1
DC3000/delta hrp 24h	0.30497	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.51354	0.023
DC3000 delta B/DC3000 delta AB	0.82839	0.236

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01313	1
Exp 36h	0.58714	0.406
Exp 60h	0.64839	0.386

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	0.91305	0.457
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)	0.85098	0.428
transgenic ySAMdc/azygous control (breaker)	0.97405	1
transgenic ySAMdc/azygous control (red)	0.91938	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00616	0.909

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.93959	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.63093	1
Manapal/WT (break)	0.93012	1
Manapal/WT (red)	1.00036	1