Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.16.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32672	0.272
27DAP/17DAP	1.19353	0.798
39DAP/27DAP	1.554	0.072
41DAP/39DAP	0.72442	0.15
42DAP/41DAP	1.01631	1
43DAP/42DAP	0.87193	0.801
47DAP/43DAP	1.07774	0.943
52DAP/47DAP	1.01894	0.856
57DAP/52DAP	1.25625	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09756	0.081
17DAP/reference	1.04131	0.492
27DAP/reference	0.99791	0.822
39DAP/reference	1.02451	0.8
41DAP/reference	1.07611	0.287
42DAP/reference	1.15529	0.002
43DAP/reference	1.06401	0.445
47DAP/reference	1.18914	0.004
52DAP/reference	0.95601	0.319
57DAP/reference	0.9649	0.165

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25222	0.284
27DAP/17DAP	1.07682	0.699
39DAP/27DAP	0.9793	0.887
41DAP/39DAP	1.24683	0.108
42DAP/41DAP	0.89814	0.404
43DAP/42DAP	0.72049	0.022
47DAP/43DAP	1.08924	0.456
52DAP/47DAP	0.88514	0.433
57DAP/52DAP	1.14728	0.389
57DAP/7DAP	1.30498	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00313	1
17DAP/reference	0.92222	0.031
27DAP/reference	0.93779	0.094
39DAP/reference	0.90069	0.083
41DAP/reference	0.99738	0.741
42DAP/reference	1.17071	0.1
43DAP/reference	1.36624	0.026
47DAP/reference	0.96917	0.504
52DAP/reference	1.10226	0.459
57DAP/reference	1.12814	0.198

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11831	0.531
17DAP/reference	1.16568	0.104
27DAP/reference	1.06798	0.67
39DAP/reference	1.35055	0.141
41DAP/reference	1.29092	0.048
42DAP/reference	1.1456	0.162
43DAP/reference	1.16494	0.453
47DAP/reference	1.08425	0.274
52DAP/reference	1.25974	0.017
57DAP/reference	1.21114	0.012

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92958	0.135
17DAP/reference	0.9274	0.21
27DAP/reference	0.94979	0.038
39DAP/reference	0.90221	0.021
41DAP/reference	0.92697	0.264
42DAP/reference	0.88145	0.025
43DAP/reference	0.84063	0.047
47DAP/reference	0.92994	0.231
52DAP/reference	0.96454	0.675
57DAP/reference	0.95633	0.468

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99458	1
26DAP/20DAP	1.03614	1
34DAP/26DAP	1.01633	1
51DAP/34DAP	0.60963	0.054
52DAP/51DAP	1.06376	1
53DAP/52DAP	1.08868	0.882
55DAP/53DAP	0.80059	0.13
57DAP/55DAP	1.08868	0.947
62DAP/57DAP	1.05859	0.8
68DAP/62DAP	1.94995	0.885
68DAP/14DAP	1.16876	0.739

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.19163	0.017

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.43602	0.287
Mature Green Tomato/Ripe Tomato	1.85357	0.058
Immature Eggplant/Mature Eggplant	1.7892	0.052
Ripe Pepper/Ripe Tomato	0.54475	1
Mature Eggplant/Ripe Tomato	0.59872	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.00003	1
12-2/M82	N/A	N/A
12-4/M82	0.73234	0.282
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	0.85763
4-1-1/M82	N/A	N/A
4-1/M82	1.03025
4-3-2/M82	1.2011	0.241
4-3/M82	1.45216
5-3/M82	0.81982
6-2/M82	N/A	N/A
6-3/M82	0.9029
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.19976

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	N/A	N/A
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	1.02842	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04932	0.921
DC3000/delta hrp 6h	1.08143	1
DC3000/delta hrp 12h	1.00795	1
DC3000/delta hrp 24h	0.90387	0.464

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.22744	0.042
DC3000 delta B/DC3000 delta AB	1.10157	0.484

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01926	1
Exp 36h	0.86663	0.623
Exp 60h	0.97417	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0293	1
Var 0h	1.48733	0.98
Var 12h I row2-row1	0.81799	0.344
Var 12h NI row2-row1	1.03724	1
Var 36h I row2-row1	0.99235	1
Var 36h NI row2-row1	1.0345	1
Var 60h I row2-row1	0.99041	1
Var 60h NI row2-row1	0.90422	0.818
Time course 0hI-0hNI	0.96702	0.771
Time course 12hI-12hNI	0.96799	0.716
Time course 36hI-36hNI	1.09222	0.355
Time course 60hI-60hNI	0.7806	0.015

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)	1.18774	0.264
transgenic ySAMdc/azygous control (breaker)	0.97809	1
transgenic ySAMdc/azygous control (red)	0.92181	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98777	0.568

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96105	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.31256	0.14
Manapal/WT (break)	1.17516	0.381
Manapal/WT (red)	1.21576	0.413