Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.19.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03174	1
27DAP/17DAP	1.18319	0.859
39DAP/27DAP	1.12895	0.833
41DAP/39DAP	0.99002	0.905
42DAP/41DAP	0.90835	1
43DAP/42DAP	1.10733	0.974
47DAP/43DAP	1.1863	0.334
52DAP/47DAP	0.8269	0.551
57DAP/52DAP	1.04469	0.978

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21386	0.033
17DAP/reference	1.08125	0.071
27DAP/reference	1.07342	0.252
39DAP/reference	1.05129	0.301
41DAP/reference	1.15292	0.05
42DAP/reference	1.20766	0.003
43DAP/reference	1.01534	0.928
47DAP/reference	1.16351	0.003
52DAP/reference	1.23338	0.04
57DAP/reference	1.04192	0.6

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15713	0.205
27DAP/17DAP	0.90432	0.418
39DAP/27DAP	0.8617	0.167
41DAP/39DAP	1.1183	0.861
42DAP/41DAP	0.9431	0.503
43DAP/42DAP	0.91172	0.308
47DAP/43DAP	0.92646	0.41
52DAP/47DAP	1.11587	0.669
57DAP/52DAP	0.99834	0.887
57DAP/7DAP	0.79297	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1836	0.121
17DAP/reference	0.84184	0.031
27DAP/reference	0.74731	0.01
39DAP/reference	0.8808	0.083
41DAP/reference	0.76746	0.016
42DAP/reference	0.85781	0.16
43DAP/reference	0.71343	0.011
47DAP/reference	0.97203	0.671
52DAP/reference	0.77564	0.012
57DAP/reference	0.74511	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09935	0.289
17DAP/reference	1.21756	0.101
27DAP/reference	1.26623	0.118
39DAP/reference	1.37415	0.013
41DAP/reference	1.34596	0.013
42DAP/reference	1.15541	0.281
43DAP/reference	1.24905	0.17
47DAP/reference	1.19543	0.008
52DAP/reference	1.38128	0.007
57DAP/reference	1.2304	0.039

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.49366	0.023
17DAP/reference	1.15474	0.269
27DAP/reference	0.93638	0.27
39DAP/reference	0.9363	0.36
41DAP/reference	0.87562	0.132
42DAP/reference	0.84622	0.287
43DAP/reference	1.12461	0.744
47DAP/reference	1.25421	0.021
52DAP/reference	0.76815	0.22
57DAP/reference	1.2299	0.124

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03272	0.966
26DAP/20DAP	0.86517	0.512
34DAP/26DAP	1.26523	0.542
51DAP/34DAP	0.89588	0.333
52DAP/51DAP	0.93873	1
53DAP/52DAP	1.01863	0.998
55DAP/53DAP	1.07679	0.599
57DAP/55DAP	1.07797	0.854
62DAP/57DAP	1.07137	1
68DAP/62DAP	0.77117	0.263
68DAP/14DAP	1.01524	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.70718	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97365	0.726
Mature Green Tomato/Ripe Tomato	2.27151	0.015
Immature Eggplant/Mature Eggplant	1.44551	0.05
Ripe Pepper/Ripe Tomato	0.39747	0.224
Mature Eggplant/Ripe Tomato	0.80819	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10558	0.591
1-1-2/M82	0.9838	1
12-2/M82	0.98518	1
12-4/M82	1.1026	1
1-3/M82	0.98139	1
2-1-1/M82	0.94334	0.465
2-1/M82	1.11806
2-6/M82	0.99818	1
3-2/M82	0.92179
4-1-1/M82	1.01076	1
4-1/M82	0.97326	1
4-3-2/M82	0.92709	1
4-3/M82	0.94654	1
5-3/M82	1.03582	1
6-2/M82	1.04978	1
6-3/M82	1.01405	1
7-1/M82	1.01294	1
7-2/M82	1.00353	1
9-3-2/M82	1.13981	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88331
IL2-6/WTpooled	1.23121	0.441
IL7-5/WTpooled	1.0665	1
IL7-3/WTpooled	0.76867	0.298
IL12-4/WTpooled	0.97943	1
IL1-4/WTpooled	0.95842	0.834
WT/WTpooled	1.03528	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	1.15793	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99375	1
DC3000/delta hrp 6h	1.10319	1
DC3000/delta hrp 12h	1.07818	1
DC3000/delta hrp 24h	1.0319	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.73382	0.025
DC3000 delta B/DC3000 delta AB	0.85754	0.129

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.81804	1
Exp 36h	1.78621	0.693
Exp 60h	1.51649	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99608	1
Var 0h	0.98976	1
Var 12h I row2-row1	0.73864	0.338
Var 12h NI row2-row1	0.83135	0.494
Var 36h I row2-row1	1.00206	1
Var 36h NI row2-row1	1.15899	1
Var 60h I row2-row1	0.97353	1
Var 60h NI row2-row1	0.97391	1
Time course 0hI-0hNI	0.9912	1
Time course 12hI-12hNI	1.07112	0.56
Time course 36hI-36hNI	0.92314	0.302
Time course 60hI-60hNI	0.39696	0.005

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)	1.18565	0.297
transgenic ySAMdc/azygous control (breaker)	1.09679	1
transgenic ySAMdc/azygous control (red)	1.02339	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93477	0.057

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0968	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.03195	1