Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.9.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13992	0.561
27DAP/17DAP	1.29437	0.742
39DAP/27DAP	1.03407	0.899
41DAP/39DAP	1.03261	0.938
42DAP/41DAP	0.87498	1
43DAP/42DAP	1.05195	1
47DAP/43DAP	1.19464	0.285
52DAP/47DAP	0.96979	0.903
57DAP/52DAP	1.11756	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01819	0.96
17DAP/reference	1.03462	0.031
27DAP/reference	1.00617	0.909
39DAP/reference	1.03201	0.654
41DAP/reference	1.02553	0.587
42DAP/reference	0.95316	0.163
43DAP/reference	0.98601	0.728
47DAP/reference	0.98135	0.418
52DAP/reference	0.88639	0.158
57DAP/reference	0.82397	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05522	0.687
27DAP/17DAP	1.02144	0.942
39DAP/27DAP	0.98201	0.859
41DAP/39DAP	1.05204	0.705
42DAP/41DAP	0.9892	0.869
43DAP/42DAP	0.98815	0.902
47DAP/43DAP	0.97254	0.896
52DAP/47DAP	0.98348	0.959
57DAP/52DAP	1.02548	0.925
57DAP/7DAP	0.98667	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08783	0.545
17DAP/reference	1.11991	0.688
27DAP/reference	1.02286	0.8
39DAP/reference	1.24278	0.12
41DAP/reference	0.98782	0.512
42DAP/reference	1.01369	0.713
43DAP/reference	1.12967	0.307
47DAP/reference	1.00289	1
52DAP/reference	1.0474	1
57DAP/reference	1.1402	0.654

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02981	0.531
17DAP/reference	1.04527	0.448
27DAP/reference	0.90732	0.22
39DAP/reference	1.04464	0.868
41DAP/reference	0.97072	0.384
42DAP/reference	0.99927	0.723
43DAP/reference	0.95041	0.438
47DAP/reference	0.94	0.094
52DAP/reference	1.01335	0.938
57DAP/reference	1.16028	0.119

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31938	0.086
17DAP/reference	1.01248	0.977
27DAP/reference	0.92211
39DAP/reference	1.48734	0.182
41DAP/reference	1.50611	0.357
42DAP/reference	0.91752	0.552
43DAP/reference	0.72007	0.095
47DAP/reference	0.99434	0.667
52DAP/reference	0.88906	0.424
57DAP/reference	0.76435	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03255	0.966
26DAP/20DAP	0.96647	1
34DAP/26DAP	1.0032	1
51DAP/34DAP	0.96838	0.743
52DAP/51DAP	0.95199	1
53DAP/52DAP	0.95733	0.703
55DAP/53DAP	0.80995	0.055
57DAP/55DAP	1.03086	0.935
62DAP/57DAP	0.95021	0.28
68DAP/62DAP	1.13384	0.573
68DAP/14DAP	0.96885	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94557	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.32307	0.287
Mature Green Tomato/Ripe Tomato	0.73377	0.119
Immature Eggplant/Mature Eggplant	1.14366	0.348
Ripe Pepper/Ripe Tomato	1.21993	1
Mature Eggplant/Ripe Tomato	0.40791

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96381	0.944
1-1-2/M82	1.48517	1
12-2/M82	0.99055	1
12-4/M82	0.90598	1
1-3/M82	0.95347	0.378
2-1-1/M82	0.92109	0.784
2-1/M82	1.30548
2-6/M82	0.99012	1
3-2/M82	0.88714	1
4-1-1/M82	0.84786	1
4-1/M82	0.81147	0.665
4-3-2/M82	0.71778	0.445
4-3/M82	1.15603	1
5-3/M82	1.02076	0.572
6-2/M82	0.98439	1
6-3/M82	1.01067	1
7-1/M82	0.93543	1
7-2/M82	0.97861	0.881
9-3-2/M82	0.82489	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.66153	0.247
IL2-6/WTpooled	1.19881	0.584
IL7-5/WTpooled	0.99508	1
IL7-3/WTpooled	0.77651	0.293
IL12-4/WTpooled	1.14483	0.595
IL1-4/WTpooled	0.46988	0.422
WT/WTpooled	1.00761	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	1.02082	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02928	0.921
DC3000/delta hrp 6h	1.30575	1
DC3000/delta hrp 12h	0.86983	1
DC3000/delta hrp 24h	0.97488	0.875

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19559	0.06
DC3000 delta B/DC3000 delta AB	1.05162	0.477

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87398	1
Exp 36h	1.16338	0.693
Exp 60h	1.18412	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02513	1
Var 0h	0.97634	1
Var 12h I row2-row1	1.0984	0.654
Var 12h NI row2-row1	1.38817	1
Var 36h I row2-row1	0.94929	1
Var 36h NI row2-row1	0.83779	0.645
Var 60h I row2-row1	1.08984	1
Var 60h NI row2-row1	1.1871	0.904
Time course 0hI-0hNI	1.0834	0.603
Time course 12hI-12hNI	0.96102	0.738
Time course 36hI-36hNI	1.0553	0.453
Time course 60hI-60hNI	1.30107	0.019

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)	0.99809	1
transgenic ySAMdc/azygous control (breaker)	1.31904	0.178
transgenic ySAMdc/azygous control (red)	1.05992	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03961	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06965	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86707	1
Manapal/WT (break)	0.91843	1
Manapal/WT (red)	1.09526	0.413