Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.10.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18267	0.512
27DAP/17DAP	1.13853	0.845
39DAP/27DAP	0.79944	0.425
41DAP/39DAP	1.27591	0.295
42DAP/41DAP	0.94983	1
43DAP/42DAP	0.97398	0.909
47DAP/43DAP	1.19485	0.542
52DAP/47DAP	0.93019	0.777
57DAP/52DAP	0.96727	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02575	0.928
17DAP/reference	1.1016	0.143
27DAP/reference	0.90713	0.137
39DAP/reference	1.09874	0.326
41DAP/reference	1.25691	0.067
42DAP/reference	1.10642	0.869
43DAP/reference	1.0693	0.287
47DAP/reference	0.95646	0.322
52DAP/reference	0.94624	0.36
57DAP/reference	1.00852	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80968	0.131
27DAP/17DAP	1.08228	0.881
39DAP/27DAP	1.09624	0.57
41DAP/39DAP	0.97335	0.893
42DAP/41DAP	1.23225	0.55
43DAP/42DAP	0.86484	0.256
47DAP/43DAP	0.91358	0.781
52DAP/47DAP	2.56998	0.045
57DAP/52DAP	2.23429	0.035
57DAP/7DAP	3.19919	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12061	0.246
17DAP/reference	1.23177	0.028
27DAP/reference	1.03962	0.804
39DAP/reference	1.32099	0.026
41DAP/reference	1.41273	0.02
42DAP/reference	1.36232	0.1
43DAP/reference	2.20527	0.007
47DAP/reference	0.99515	0.671
52DAP/reference	1.81679	0.026
57DAP/reference	1.53041	0.035

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.63141	0.069
17DAP/reference	1.73053	0.01
27DAP/reference	1.45087	0.044
39DAP/reference	1.17986	0.316
41DAP/reference	1.27106	0.033
42DAP/reference	1.57674	0.009
43DAP/reference	2.57471	0.055
47DAP/reference	1.89687	0.008
52DAP/reference	1.55392	0.023
57DAP/reference	1.66536	0.02

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02843	1
17DAP/reference	1.2982	0.072
27DAP/reference	1.54019	0.022
39DAP/reference	1.51693	0.007
41DAP/reference	1.48171	0.02
42DAP/reference	1.12352	0.373
43DAP/reference	1.14989	0.355
47DAP/reference	1.34454	0.015
52DAP/reference	1.39551	0.205
57DAP/reference	0.98941	0.633

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00205	1
26DAP/20DAP	2.73905	0.238
34DAP/26DAP	2.15114	1
51DAP/34DAP	2.19355	0.429
52DAP/51DAP	3.0193	0.033
53DAP/52DAP	0.50688
55DAP/53DAP	1.35244	0.193
57DAP/55DAP	0.60599	0.066
62DAP/57DAP	1.10353	0.622
68DAP/62DAP	2.46773	0.455
68DAP/14DAP	0.86603	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.23585	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.2536	0.752
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.76015
Mature Eggplant/Ripe Tomato	0.92617	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.844
1-1-2/M82	0.91698	0.804
12-2/M82	N/A	N/A
12-4/M82	0.98149	1
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	1.10043
4-1-1/M82	N/A	N/A
4-1/M82	0.89311
4-3-2/M82	0.90787	0.405
4-3/M82	0.88564	1
5-3/M82	1.16432	1
6-2/M82	N/A	N/A
6-3/M82	0.95301
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.82167	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.86805
IL2-6/WTpooled	1.13885	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.77828	0.294
IL12-4/WTpooled	0.7383	0.71
IL1-4/WTpooled	0.97304	1
WT/WTpooled	0.89109	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	0.92863	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90309	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.03914	1
DC3000/delta hrp 24h	1.13644	0.502

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.432	0.042
DC3000 delta B/DC3000 delta AB	1.29156	0.204

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.01815	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9861	1
Var 0h	1.21257	1
Var 12h I row2-row1	0.53333	0.363
Var 12h NI row2-row1	0.94136	0.82
Var 36h I row2-row1	1.04897	1
Var 36h NI row2-row1	1.34163	0.482
Var 60h I row2-row1	0.65403	0.285
Var 60h NI row2-row1	0.83302	0.932
Time course 0hI-0hNI	0.97006	0.845
Time course 12hI-12hNI	1.22631	0.201
Time course 36hI-36hNI	0.92559	0.33
Time course 60hI-60hNI	1.39725	0.013

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.10133	1
transgenic ySAMdc/azygous control (red)	1.29757	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00297	0.909

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92979	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.48024	0.307
Manapal/WT (break)	1.03281	1
Manapal/WT (red)	0.99541	0.863