Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.14.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7537	0.173
27DAP/17DAP	0.84539	0.602
39DAP/27DAP	1.44397	0.339
41DAP/39DAP	0.49608	0.045
42DAP/41DAP	0.91435	1
43DAP/42DAP	1.04652	0.937
47DAP/43DAP	0.46034	0.052
52DAP/47DAP	1.54616	0.521
57DAP/52DAP	1.20292	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.72104	0.012
17DAP/reference	1.0587	0.858
27DAP/reference	0.65802	0.013
39DAP/reference	0.63148	0.027
41DAP/reference	0.71014	0.039
42DAP/reference	1.11392	0.093
43DAP/reference	0.75996	0.027
47DAP/reference	0.80816	0.001
52DAP/reference	0.43619	0.013
57DAP/reference	0.61294	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85628	0.17
27DAP/17DAP	1.08818	0.541
39DAP/27DAP	0.76365	0.044
41DAP/39DAP	1.0813	1
42DAP/41DAP	0.98494	0.801
43DAP/42DAP	0.84677	0.035
47DAP/43DAP	0.94299	0.712
52DAP/47DAP	0.55541	0.041
57DAP/52DAP	0.87808	0.463
57DAP/7DAP	0.35455	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.83704	0.024
17DAP/reference	1.85247	0.007
27DAP/reference	1.31741	0.035
39DAP/reference	1.20907	0.019
41DAP/reference	1.35256	0.012
42DAP/reference	1.23733	0.046
43DAP/reference	1.06088	0.537
47DAP/reference	1.08269	0.717
52DAP/reference	1.01799	1
57DAP/reference	0.93214	0.27

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25115	0.3
17DAP/reference	1.58596	0.012
27DAP/reference	1.51004	0.054
39DAP/reference	0.87758	0.093
41DAP/reference	1.10831	0.525
42DAP/reference	1.41957	0.011
43DAP/reference	0.80688	0.117
47DAP/reference	1.09586	0.572
52DAP/reference	0.59614	0.003
57DAP/reference	0.72687	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.15973	0.015
17DAP/reference	1.39268	0.269
27DAP/reference	1.48366	0.028
39DAP/reference	1.40298	0.012
41DAP/reference	1.03068	0.692
42DAP/reference	0.96653	0.552
43DAP/reference	1.10664	0.426
47DAP/reference	0.51397	0.004
52DAP/reference	0.90999	0.405
57DAP/reference	0.73367	0.03

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05485	1
26DAP/20DAP	4.95087	0.097
34DAP/26DAP	0.69518	0.171
51DAP/34DAP	0.86669	0.498
52DAP/51DAP	0.93251	1
53DAP/52DAP	0.93188	0.703
55DAP/53DAP	0.71761	0.025
57DAP/55DAP	1.10971	0.854
62DAP/57DAP	1.00024	1
68DAP/62DAP	0.80289	0.429
68DAP/14DAP	0.89684	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.9169	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.05478	0.417
Mature Green Tomato/Ripe Tomato	1.92485	0.017
Immature Eggplant/Mature Eggplant	0.91025	0.105
Ripe Pepper/Ripe Tomato	1.32771	1
Mature Eggplant/Ripe Tomato	1.55305	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94368	0.907
1-1-2/M82	1.2504	1
12-2/M82	0.86921	0.955
12-4/M82	1.19069	1
1-3/M82	1.32078	0.479
2-1-1/M82	1.17824	1
2-1/M82	1.02136
2-6/M82	1.41009	0.425
3-2/M82	1.02681
4-1-1/M82	1.4446	1
4-1/M82	1.32201	1
4-3-2/M82	N/A	N/A
4-3/M82	1.45535	1
5-3/M82	1.3514	0.455
6-2/M82	N/A	N/A
6-3/M82	0.66143	0.619
7-1/M82	1.09061	1
7-2/M82	2.14768
9-3-2/M82	1.60243	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.73428	0.247
IL2-6/WTpooled	0.89775	0.473
IL7-5/WTpooled	1.06189	1
IL7-3/WTpooled	0.81341	0.31
IL12-4/WTpooled	0.82735	0.581
IL1-4/WTpooled	0.95389	0.834
WT/WTpooled	1.02127	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	1.18552	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9986	1
DC3000/delta hrp 6h	0.98946	0.95
DC3000/delta hrp 12h	1.19244	1
DC3000/delta hrp 24h	1.08066	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.31789	0.045
DC3000 delta B/DC3000 delta AB	1.34473	0.144

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18767	1
Exp 36h	1.03075	1
Exp 60h	1.14446	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02648	1
Var 0h	0.74776	0.933
Var 12h I row2-row1	0.91983	0.565
Var 12h NI row2-row1	1.0693	1
Var 36h I row2-row1	1.05616	1
Var 36h NI row2-row1	0.95912	0.469
Var 60h I row2-row1	0.87038	0.285
Var 60h NI row2-row1	0.89245	0.818
Time course 0hI-0hNI	1.08187	0.662
Time course 12hI-12hNI	1.02263	0.81
Time course 36hI-36hNI	1.3487	0.006
Time course 60hI-60hNI	1.39903	0.022

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)	1.07115	0.654
transgenic ySAMdc/azygous control (breaker)	1.17618	1
transgenic ySAMdc/azygous control (red)	1.27016	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.30056	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91041	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06989	0.307
Manapal/WT (break)	1.10372	0.381
Manapal/WT (red)	0.93916	0.274