Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.17.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76692	0.195
27DAP/17DAP	1.01748	0.92
39DAP/27DAP	0.97694	0.719
41DAP/39DAP	0.99059	0.962
42DAP/41DAP	1.09234	0.967
43DAP/42DAP	0.98189	0.925
47DAP/43DAP	1.0655	0.809
52DAP/47DAP	1.00811	0.994
57DAP/52DAP	0.98094	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16381	0.334
17DAP/reference	1.07341	0.528
27DAP/reference	1.22407	0.03
39DAP/reference	0.92806	0.254
41DAP/reference	1.0484	0.516
42DAP/reference	1.36812	0.015
43DAP/reference	1.19501	0.445
47DAP/reference	1.52793	0.001
52DAP/reference	2.02642	0.008
57DAP/reference	1.67227	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88151	0.277
27DAP/17DAP	1.00783	1
39DAP/27DAP	1.07148	0.615
41DAP/39DAP	0.91914	0.793
42DAP/41DAP	1.03363	0.893
43DAP/42DAP	1.12826	0.176
47DAP/43DAP	1.02727	0.827
52DAP/47DAP	1.09509	0.718
57DAP/52DAP	1.06738	0.688
57DAP/7DAP	0.95408	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88993	0.108
17DAP/reference	0.98534	0.518
27DAP/reference	1.00523	1
39DAP/reference	1.18213	0.222
41DAP/reference	1.12809	0.475
42DAP/reference	1.16523	0.308
43DAP/reference	0.97949	0.527
47DAP/reference	1.22137	0.091
52DAP/reference	1.02725	0.886
57DAP/reference	1.10509	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10825	0.495
17DAP/reference	1.31887	0.081
27DAP/reference	0.9799	0.537
39DAP/reference	1.08878	0.764
41DAP/reference	1.33701	0.194
42DAP/reference	1.16912	0.281
43DAP/reference	0.98178	0.633
47DAP/reference	1.13996	0.205
52DAP/reference	1.23214	0.074
57DAP/reference	1.06618	0.827

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8808	0.135
17DAP/reference	1.04078	0.898
27DAP/reference	0.81443	0.036
39DAP/reference	1.0138	1
41DAP/reference	1.0235	1
42DAP/reference	1.08807	0.789
43DAP/reference	1.39449	0.037
47DAP/reference	1.35676	0.055
52DAP/reference	1.01317	1
57DAP/reference	1.36164	0.063

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13941	0.008
26DAP/20DAP	0.96908	1
34DAP/26DAP	1.04658	1
51DAP/34DAP	0.98426	0.856
52DAP/51DAP	1.08645	0.638
53DAP/52DAP	0.99099	0.99
55DAP/53DAP	1.04535	0.991
57DAP/55DAP	1.07546	0.947
62DAP/57DAP	1.05896	1
68DAP/62DAP	1.54158	0.515
68DAP/14DAP	0.89519	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8618	0.079

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.02974	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.02287
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	1.17079
4-3-2/M82	0.94703	1
4-3/M82	0.95573
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	0.7208

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03151	1
IL2-6/WTpooled	1.38023
IL7-5/WTpooled	0.6522
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.96021	1
IL1-4/WTpooled	1.04344	1
WT/WTpooled	0.89794	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	1.14247	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.78066	0.213
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.06078	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.8601	0.093
DC3000 delta B/DC3000 delta AB	0.86972	0.097

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.17158	0.201
Exp 36h	N/A	N/A
Exp 60h	1.0961	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9856	1
Var 0h	0.93619	1
Var 12h I row2-row1	1.06206	0.443
Var 12h NI row2-row1	0.86916	0.627
Var 36h I row2-row1	1.02343	0.908
Var 36h NI row2-row1	1.01066	1
Var 60h I row2-row1	1.23247	1
Var 60h NI row2-row1	1.19243	0.904
Time course 0hI-0hNI	0.98464	0.962
Time course 12hI-12hNI	1.00243	1
Time course 36hI-36hNI	0.87073	0.076
Time course 60hI-60hNI	0.90803	0.081

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)	0.69632	0.171
transgenic ySAMdc/azygous control (breaker)	0.90637	0.49
transgenic ySAMdc/azygous control (red)	0.92841	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.59189	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7636	1
Manapal/WT (break)	1.01394	1
Manapal/WT (red)	0.65535	0.181