Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.1.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.47294	0.02
27DAP/17DAP	1.5161	0.532
39DAP/27DAP	1.03507	0.876
41DAP/39DAP	0.87778	0.533
42DAP/41DAP	1.3826	0.712
43DAP/42DAP	1.2457	0.553
47DAP/43DAP	2.05445	0.198
52DAP/47DAP	1.07091	0.915
57DAP/52DAP	1.37677	0.76

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04375	0.872
17DAP/reference	0.84761	0.05
27DAP/reference	0.89972	0.286
39DAP/reference	0.90703	0.298
41DAP/reference	0.85437	0.201
42DAP/reference	1.07883	0.585
43DAP/reference	1.2256	0.36
47DAP/reference	1.19567	0.114
52DAP/reference	1.14355	0.302
57DAP/reference	0.97252	0.479

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15272	0.431
27DAP/17DAP	1.11084	0.817
39DAP/27DAP	1.0637	0.779
41DAP/39DAP	0.95013	0.875
42DAP/41DAP	1.25621	0.008
43DAP/42DAP	1.20381	0.324
47DAP/43DAP	1.10244	0.471
52DAP/47DAP	1.63755	0.1
57DAP/52DAP	1.17717	0.479
57DAP/7DAP	1.5692

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68752	0.088
17DAP/reference	0.65968	0.014
27DAP/reference	1.00172	0.698
39DAP/reference	0.55274	0.012
41DAP/reference	0.61495	0.019
42DAP/reference	0.82172	0.106
43DAP/reference	0.42212	0.011
47DAP/reference	0.72475	0.222
52DAP/reference	0.38569	0.01
57DAP/reference	0.30805	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90071	0.457
17DAP/reference	0.97155	0.576
27DAP/reference	1.19528	0.562
39DAP/reference	1.10005	0.745
41DAP/reference	1.16343	0.215
42DAP/reference	1.12783	0.233
43DAP/reference	1.00158	0.774
47DAP/reference	1.05547	0.527
52DAP/reference	1.03426	0.938
57DAP/reference	0.94407	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72783	0.059
17DAP/reference	0.91207	0.398
27DAP/reference	0.50482	0.031
39DAP/reference	0.58409	0.016
41DAP/reference	0.72249	0.058
42DAP/reference	0.86988	0.361
43DAP/reference	0.48564	0.027
47DAP/reference	0.91169	0.325
52DAP/reference	1.29662	0.952
57DAP/reference	1.07293	0.878

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97911	1
26DAP/20DAP	1.17389	0.647
34DAP/26DAP	0.977	0.991
51DAP/34DAP	1.078	0.883
52DAP/51DAP	1.04225	0.904
53DAP/52DAP	0.9845	0.902
55DAP/53DAP	1.09832	0.842
57DAP/55DAP	1.02549	0.914
62DAP/57DAP	0.30777
68DAP/62DAP	0.95549	0.885
68DAP/14DAP	0.74496

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.79127	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	0.16265	0.018
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	13.8507	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	1.85997
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	1.05477	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.0004	1
IL7-3/WTpooled	0.78381
IL12-4/WTpooled	0.62516	0.71
IL1-4/WTpooled	0.91257	0.476
WT/WTpooled	1.00223	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	0.60615	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03017	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.18341	1
DC3000/delta hrp 24h	15.4706	0.025

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.34999	0.045
DC3000 delta B/DC3000 delta AB	0.98882	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.37541	1
Exp 36h	N/A	N/A
Exp 60h	1.15996	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01335	1
Var 0h	1.42997	0.782
Var 12h I row2-row1	1.19424	0.348
Var 12h NI row2-row1	0.67473	0.494
Var 36h I row2-row1	0.94353	1
Var 36h NI row2-row1	0.80714	0.276
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.70429	0.904
Time course 0hI-0hNI	0.77569	0.136
Time course 12hI-12hNI	0.74818	0.198
Time course 36hI-36hNI	0.85941	0.123
Time course 60hI-60hNI	0.23879	0.006

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)	1.05739	0.798
transgenic ySAMdc/azygous control (breaker)	0.85568	0.15
transgenic ySAMdc/azygous control (red)	0.83727	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97456	0.568

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86547	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0664	1
Manapal/WT (break)	1.18901	0.381
Manapal/WT (red)	1.1849	0.413