Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.13.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08511	0.709
27DAP/17DAP	1.00226	1
39DAP/27DAP	1.16773	0.74
41DAP/39DAP	1.12054	1
42DAP/41DAP	1.56494	0.507
43DAP/42DAP	0.95529	0.892
47DAP/43DAP	1.04824	0.966
52DAP/47DAP	1.35317	0.578
57DAP/52DAP	0.95836	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96904	0.422
17DAP/reference	0.91749	0.321
27DAP/reference	0.8852	0.064
39DAP/reference	0.99656	1
41DAP/reference	1.02088	0.667
42DAP/reference	0.95843	0.067
43DAP/reference	1.08954	0.061
47DAP/reference	0.94771	0.09
52DAP/reference	0.98872	0.636
57DAP/reference	1.01282	0.853

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97726	0.716
27DAP/17DAP	1.06901	0.805
39DAP/27DAP	1.02239	0.779
41DAP/39DAP	1.03967	0.914
42DAP/41DAP	1.07541	0.651
43DAP/42DAP	1.08105	0.273
47DAP/43DAP	1.1128	0.765
52DAP/47DAP	1.04778	0.831
57DAP/52DAP	0.96357	0.566
57DAP/7DAP	1.20055	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86171	0.095
17DAP/reference	0.90278	0.031
27DAP/reference	0.98401	0.53
39DAP/reference	0.90522	0.015
41DAP/reference	0.93672	0.133
42DAP/reference	0.88316	0.011
43DAP/reference	0.84865	0.015
47DAP/reference	0.917	0.079
52DAP/reference	0.81351	0.021
57DAP/reference	0.83561	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08314	0.249
17DAP/reference	0.99524	0.766
27DAP/reference	0.90887	0.24
39DAP/reference	0.85926	0.065
41DAP/reference	0.81443	0.038
42DAP/reference	0.97494	0.433
43DAP/reference	1.2068	0.076
47DAP/reference	1.00251	1
52DAP/reference	1.02012	0.938
57DAP/reference	1.16852	0.119

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93011	0.037
17DAP/reference	0.98079	0.696
27DAP/reference	0.94254	0.27
39DAP/reference	0.88984	0.037
41DAP/reference	0.88602	0.019
42DAP/reference	0.89905	0.22
43DAP/reference	0.8124	0.052
47DAP/reference	0.93748	0.325
52DAP/reference	0.94309	0.455
57DAP/reference	0.69373	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98555	1
26DAP/20DAP	0.92898	0.512
34DAP/26DAP	1.025	1
51DAP/34DAP	1.02565	0.883
52DAP/51DAP	1.0035	0.965
53DAP/52DAP	1.05563	0.738
55DAP/53DAP	1.05806	0.748
57DAP/55DAP	1.05011	0.927
62DAP/57DAP	1.1168	0.833
68DAP/62DAP	1.12731	0.971
68DAP/14DAP	0.89756	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11344	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.09674
Mature Green Tomato/Ripe Tomato	0.89284	0.446
Immature Eggplant/Mature Eggplant	1.4395	0.181
Ripe Pepper/Ripe Tomato	0.63029	0.293
Mature Eggplant/Ripe Tomato	0.4757	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98653	1
1-1-2/M82	0.92709	1
12-2/M82	1.04266	1
12-4/M82	1.05183	0.611
1-3/M82	0.89757	0.501
2-1-1/M82	1.22779
2-1/M82	1.19632
2-6/M82	1.08546	1
3-2/M82	N/A	N/A
4-1-1/M82	1.03183	1
4-1/M82	1.48009
4-3-2/M82	0.97436	1
4-3/M82	1.12659	1
5-3/M82	0.92423	1
6-2/M82	0.91062	1
6-3/M82	0.95979	1
7-1/M82	N/A	N/A
7-2/M82	1.06728	1
9-3-2/M82	0.96194	1

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	1.08778	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12782	0.823
DC3000/delta hrp 6h	0.97708	0.95
DC3000/delta hrp 12h	1.05472	1
DC3000/delta hrp 24h	1.02692	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20513	0.134
DC3000 delta B/DC3000 delta AB	1.01109	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95327	1
Exp 36h	1.22461	1
Exp 60h	1.2335	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03327	1
Var 0h	0.92147	1
Var 12h I row2-row1	1.07565	0.379
Var 12h NI row2-row1	0.99673	1
Var 36h I row2-row1	0.95467	1
Var 36h NI row2-row1	0.70011	0.743
Var 60h I row2-row1	1.17218	1
Var 60h NI row2-row1	1.10375	1
Time course 0hI-0hNI	1.05282	0.852
Time course 12hI-12hNI	1.06553	0.709
Time course 36hI-36hNI	0.98843	0.644
Time course 60hI-60hNI	1.30874	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)	0.80334	0.236
transgenic ySAMdc/azygous control (breaker)	1.10526	0.248
transgenic ySAMdc/azygous control (red)	0.97869	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02268	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09449	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76555	1
Manapal/WT (break)	0.83204	1
Manapal/WT (red)	0.89657	0.424