Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.17.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41042	0.365
27DAP/17DAP	0.97383	0.947
39DAP/27DAP	1.31366	0.919
41DAP/39DAP	1.52036	0.268
42DAP/41DAP	1.53561	0.159
43DAP/42DAP	1.82445	0.148
47DAP/43DAP	1.52589	0.42
52DAP/47DAP	1.41071	0.538
57DAP/52DAP	1.04819	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28027	0.366
17DAP/reference	1.19489	0.229
27DAP/reference	1.15478	0.109
39DAP/reference	1.12643	0.465
41DAP/reference	1.3291	0.012
42DAP/reference	1.20774	0.02
43DAP/reference	1.16023	0.152
47DAP/reference	1.27462	0.02
52DAP/reference	1.013	0.768
57DAP/reference	0.80679	0.071

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07649	0.569
27DAP/17DAP	1.31682	0.116
39DAP/27DAP	1.97622	0.053
41DAP/39DAP	0.35266	0.013
42DAP/41DAP	4.08737	0.002
43DAP/42DAP	3.8611	0.013
47DAP/43DAP	0.99981	0.983
52DAP/47DAP	1.22836	0.563
57DAP/52DAP	1.02882	0.862
57DAP/7DAP	5.87219	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.55252	0.058
17DAP/reference	0.52528	0.011
27DAP/reference	0.76852	0.016
39DAP/reference	1.08674	0.297
41DAP/reference	0.64712	0.052
42DAP/reference	0.81494	0.117
43DAP/reference	0.96268	0.403
47DAP/reference	1.72139	0.187
52DAP/reference	0.71881	0.038
57DAP/reference	0.4171	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92976	0.592
17DAP/reference	1.07643	0.674
27DAP/reference	1.16955	0.583
39DAP/reference	1.09082	0.824
41DAP/reference	1.28159	0.129
42DAP/reference	1.20785	0.053
43DAP/reference	1.30221	0.352
47DAP/reference	1.0629	0.556
52DAP/reference	1.37988	0.043
57DAP/reference	1.32988	0.089

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.61635	0.046
17DAP/reference	0.91377	0.426
27DAP/reference	0.54203	0.031
39DAP/reference	0.89049	0.222
41DAP/reference	0.7294	0.04
42DAP/reference	1.86197	0.024
43DAP/reference	2.51034	0.008
47DAP/reference	1.06047	1
52DAP/reference	1.50346	0.1
57DAP/reference	0.94271	0.424

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.80323	0.841
26DAP/20DAP	0.56954	0.317
34DAP/26DAP	0.95977	0.927
51DAP/34DAP	3.14153	0.026
52DAP/51DAP	0.82024	0.151
53DAP/52DAP	4.42683	0.022
55DAP/53DAP	1.08891	0.737
57DAP/55DAP	0.62189	0.085
62DAP/57DAP	0.61057	0.088
68DAP/62DAP	1.6251	0.265
68DAP/14DAP	2.11624	0.785

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.6087	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.11233	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.20761
Mature Eggplant/Ripe Tomato	0.22645	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99027	1
1-1-2/M82	0.9475	1
12-2/M82	1.16296	1
12-4/M82	1.05865	1
1-3/M82	0.79653	0.501
2-1-1/M82	0.85543	0.683
2-1/M82	0.99104	1
2-6/M82	0.86334	1
3-2/M82	0.07036
4-1-1/M82	0.84211	1
4-1/M82	1.67919	0.853
4-3-2/M82	1.19178	1
4-3/M82	0.95651	1
5-3/M82	0.96973	1
6-2/M82	0.95067	1
6-3/M82	1.08018
7-1/M82	0.79245	0.44
7-2/M82	0.98793	1
9-3-2/M82	1.20061	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06222	1
IL2-6/WTpooled	0.88738	1
IL7-5/WTpooled	0.62636
IL7-3/WTpooled	1.00214	1
IL12-4/WTpooled	1.2329	0.516
IL1-4/WTpooled	0.99305	1
WT/WTpooled	1.04842	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	1.24919	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94881	1
DC3000/delta hrp 6h	0.93899
DC3000/delta hrp 12h	1.11591	1
DC3000/delta hrp 24h	0.7314	0.034

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	1.07524	0.609

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99305	1
Var 0h	1.09128	1
Var 12h I row2-row1	1.20698	0.204
Var 12h NI row2-row1	1.18842	0.649
Var 36h I row2-row1	1.07935	1
Var 36h NI row2-row1	1.12967	0.482
Var 60h I row2-row1	0.70654	0.285
Var 60h NI row2-row1	1.08215	0.904
Time course 0hI-0hNI	1.10616	0.574
Time course 12hI-12hNI	0.95495	0.597
Time course 36hI-36hNI	1.06659	0.799
Time course 60hI-60hNI	1.86814	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11816	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.07296	1
Manapal/WT (red)	0.89952	0.424