Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.6.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14363	0.545
27DAP/17DAP	1.07483	0.872
39DAP/27DAP	1.04822	1
41DAP/39DAP	1.25476	0.212
42DAP/41DAP	0.93487	1
43DAP/42DAP	0.92968	0.806
47DAP/43DAP	1.05145	0.633
52DAP/47DAP	1.0786	0.886
57DAP/52DAP	1.03653	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93963	0.284
17DAP/reference	0.89306	0.147
27DAP/reference	0.96652	0.538
39DAP/reference	1.01798	0.871
41DAP/reference	0.91678	0.267
42DAP/reference	1.20282	0.264
43DAP/reference	1.17866	0.73
47DAP/reference	1.05785	0.509
52DAP/reference	1.03473	0.8
57DAP/reference	1.06299	0.704

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15058	0.619
27DAP/17DAP	1.4322	0.564
39DAP/27DAP	1.29371	0.135
41DAP/39DAP	1.01864	1
42DAP/41DAP	1.02779	0.801
43DAP/42DAP	1.5586	0.23
47DAP/43DAP	0.95357	0.861
52DAP/47DAP	0.94266	0.876
57DAP/52DAP	0.93783
57DAP/7DAP	1.36381

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04448	0.999
17DAP/reference	1.33979	0.019
27DAP/reference	0.93561	0.571
39DAP/reference	0.89568	0.264
41DAP/reference	1.01519	1
42DAP/reference	0.90359	0.32
43DAP/reference	0.91063	0.241
47DAP/reference	1.05429	1
52DAP/reference	0.98875	0.571
57DAP/reference	1.29271	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85685	0.19
17DAP/reference	0.8594	0.089
27DAP/reference	0.90587	0.249
39DAP/reference	1.07463	0.824
41DAP/reference	0.97941	0.493
42DAP/reference	0.96916	0.482
43DAP/reference	0.9569	0.478
47DAP/reference	0.93431	0.129
52DAP/reference	0.95554	0.433
57DAP/reference	0.91938	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97899	0.607
17DAP/reference	0.91872	0.255
27DAP/reference	0.95391
39DAP/reference	1.10146	0.081
41DAP/reference	1.20282	0.162
42DAP/reference	0.95325	0.671
43DAP/reference	0.93356	0.503
47DAP/reference	0.97151	0.371
52DAP/reference	1.09393	0.79
57DAP/reference	1.09768	0.581

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08415	0.966
26DAP/20DAP	3.29963	0.253
34DAP/26DAP	N/A	N/A
51DAP/34DAP	0.83261	0.119
52DAP/51DAP	4.25668	0.059
53DAP/52DAP	1.17891	0.806
55DAP/53DAP	2.2442	0.693
57DAP/55DAP	1.08769	0.975
62DAP/57DAP	1.00813	1
68DAP/62DAP	1.29108	0.44
68DAP/14DAP	1.34548	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.80232	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.85899	0.2
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.7813
Mature Eggplant/Ripe Tomato	0.33429	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98365	0.961
1-1-2/M82	0.93896	1
12-2/M82	0.97935	0.955
12-4/M82	1.03196	1
1-3/M82	0.90427	0.441
2-1-1/M82	1.08592	1
2-1/M82	N/A	N/A
2-6/M82	0.94177	0.501
3-2/M82	0.98728	1
4-1-1/M82	0.81381	1
4-1/M82	1.22206	0.512
4-3-2/M82	0.92566
4-3/M82	1.01263	1
5-3/M82	1.03609	1
6-2/M82	0.95535	1
6-3/M82	1.10461	1
7-1/M82	1.05575	0.992
7-2/M82	1.07569	1
9-3-2/M82	0.79239	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.31308
IL2-6/WTpooled	0.75699	1
IL7-5/WTpooled	0.977
IL7-3/WTpooled	0.88055
IL12-4/WTpooled	1.04991	0.737
IL1-4/WTpooled	0.90681	1
WT/WTpooled	0.94301	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94726	1
DC3000/delta hrp 6h	0.84386	0.95
DC3000/delta hrp 12h	1.05859	1
DC3000/delta hrp 24h	1.08364	0.37

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08443
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	0.95187	0.879
Exp 60h	1.08983	0.563

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	1.18275	0.274
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)	0.98377	0.614
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.93223	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00798	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97302	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78771	1
Manapal/WT (break)	0.92591	1
Manapal/WT (red)	0.79303	0.187