Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.2.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86291	0.318
27DAP/17DAP	1.02604	0.92
39DAP/27DAP	1.41666	0.369
41DAP/39DAP	0.70223	0.102
42DAP/41DAP	1.03748	1
43DAP/42DAP	1.72372	0.038
47DAP/43DAP	0.54215	0.053
52DAP/47DAP	2.08864	0.058
57DAP/52DAP	1.26724	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35056	0.034
17DAP/reference	1.10814	0.306
27DAP/reference	0.97461	0.595
39DAP/reference	0.97526	0.72
41DAP/reference	1.28726	0.111
42DAP/reference	1.15031	0.062
43DAP/reference	1.05154	0.73
47DAP/reference	1.39778	0.001
52DAP/reference	1.81922	0.069
57DAP/reference	0.82879	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.54001	0.03
27DAP/17DAP	1.59965	0.031
39DAP/27DAP	0.71046	0.035
41DAP/39DAP	1.25436	0.837
42DAP/41DAP	0.97409	0.753
43DAP/42DAP	1.05382	0.513
47DAP/43DAP	0.93585	0.516
52DAP/47DAP	0.95328	0.824
57DAP/52DAP	0.73753	0.14
57DAP/7DAP	0.45558	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.55572	0.024
17DAP/reference	1.81438	0.006
27DAP/reference	1.20507	0.008
39DAP/reference	1.12501	1
41DAP/reference	1.42357	0.025
42DAP/reference	1.47723	0.024
43DAP/reference	1.16128	0.105
47DAP/reference	0.98515	0.671
52DAP/reference	0.98818	0.571
57DAP/reference	0.93281	0.24

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41849	0.09
17DAP/reference	1.60947	0.008
27DAP/reference	1.69571	0.03
39DAP/reference	1.2277	0.16
41DAP/reference	1.29227	0.162
42DAP/reference	1.25524	0.294
43DAP/reference	1.00835	0.657
47DAP/reference	1.09746	0.225
52DAP/reference	1.09827	0.135
57DAP/reference	1.18281	0.269

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.20537	0.015
17DAP/reference	1.47661	0.283
27DAP/reference	1.03432	0.805
39DAP/reference	1.22111	0.091
41DAP/reference	0.99266	0.754
42DAP/reference	1.09418	0.55
43DAP/reference	1.22836	0.142
47DAP/reference	0.96458	0.434
52DAP/reference	1.07577	0.609
57DAP/reference	1.94313	0.014

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99055	1
26DAP/20DAP	2.17747	0.097
34DAP/26DAP	0.91361	0.419
51DAP/34DAP	0.97584	0.807
52DAP/51DAP	1.169	0.313
53DAP/52DAP	0.61312	0.049
55DAP/53DAP	0.59329	0.02
57DAP/55DAP	1.4972	0.044
62DAP/57DAP	0.5166
68DAP/62DAP	0.90406	0.747
68DAP/14DAP	1.07758	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09733	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.89556	0.426
Mature Green Tomato/Ripe Tomato	0.44396	0.025
Immature Eggplant/Mature Eggplant	0.63076	0.063
Ripe Pepper/Ripe Tomato	0.61803	0.224
Mature Eggplant/Ripe Tomato	0.71974	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.48718	0.574
1-1-2/M82	0.98911	1
12-2/M82	1.01302
12-4/M82	0.92397	1
1-3/M82	1.4523	0.479
2-1-1/M82	1.3326
2-1/M82	1.31811	1
2-6/M82	0.93146	1
3-2/M82	1.33217
4-1-1/M82	0.93633	1
4-1/M82	1.77009	1
4-3-2/M82	1.10459	1
4-3/M82	1.01476	1
5-3/M82	1.36506	0.447
6-2/M82	1.13367
6-3/M82	0.99375	1
7-1/M82	0.93172	0.509
7-2/M82	1.26692	0.385
9-3-2/M82	1.42685

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12918	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.09863	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.06913	1
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	0.9387	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93079	1
DC3000/delta hrp 6h	0.86652	0.95
DC3000/delta hrp 12h	1.07407	1
DC3000/delta hrp 24h	0.92075	0.387

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18572	0.384
DC3000 delta B/DC3000 delta AB	0.97624	0.745

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87613	1
Exp 36h	1.39081	0.693
Exp 60h	1.20694	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98483
Var 0h	0.99163
Var 12h I row2-row1	1.31199	0.58
Var 12h NI row2-row1	1.22686	0.34
Var 36h I row2-row1	0.93748	1
Var 36h NI row2-row1	1.25954	1
Var 60h I row2-row1	0.93293	0.582
Var 60h NI row2-row1	0.97628	1
Time course 0hI-0hNI	0.96449	0.795
Time course 12hI-12hNI	1.06162	0.63
Time course 36hI-36hNI	1.32935	0.016
Time course 60hI-60hNI	2.23036	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)	1.26474	0.326
transgenic ySAMdc/azygous control (breaker)	1.29234	0.172
transgenic ySAMdc/azygous control (red)	0.96648	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07754	0.13

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.7798	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02642	1
Manapal/WT (break)	0.73193	1
Manapal/WT (red)	0.95982	0.503