Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.18.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92604	0.551
27DAP/17DAP	1.27828	0.742
39DAP/27DAP	0.91131	0.652
41DAP/39DAP	1.365	0.422
42DAP/41DAP	1.06417	0.938
43DAP/42DAP	0.86514	0.684
47DAP/43DAP	1.1058	0.442
52DAP/47DAP	1.07506	0.976
57DAP/52DAP	0.898	0.643

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97238	0.422
17DAP/reference	1.04112	0.166
27DAP/reference	0.99064	0.741
39DAP/reference	1.00928	0.654
41DAP/reference	0.95636	0.434
42DAP/reference	0.96622	0.085
43DAP/reference	1.02484	0.866
47DAP/reference	0.92841	0.008
52DAP/reference	0.92484	0.118
57DAP/reference	0.87115	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98475	0.763
27DAP/17DAP	1.00219	1
39DAP/27DAP	1.01774	0.799
41DAP/39DAP	0.98866	0.997
42DAP/41DAP	1.08457	0.622
43DAP/42DAP	1.02534	0.788
47DAP/43DAP	1.00591	1
52DAP/47DAP	1.02304	0.956
57DAP/52DAP	1.02199	0.933
57DAP/7DAP	1.12441	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87854	0.122
17DAP/reference	0.8532	0.014
27DAP/reference	0.86171	0.012
39DAP/reference	0.94456	0.049
41DAP/reference	0.93552	0.146
42DAP/reference	0.95742	0.222
43DAP/reference	0.89251	0.015
47DAP/reference	0.93323	0.222
52DAP/reference	0.93888	0.03
57DAP/reference	0.91812	0.097

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04046	0.55
17DAP/reference	0.96144	0.422
27DAP/reference	0.8757	0.16
39DAP/reference	0.85239	0.095
41DAP/reference	0.82424	0.038
42DAP/reference	0.87683	0.017
43DAP/reference	0.93673	0.43
47DAP/reference	0.91786	0.051
52DAP/reference	0.9741	0.38
57DAP/reference	1.14274	0.244

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88391	0.057
17DAP/reference	1.00805	1
27DAP/reference	0.88366	0.102
39DAP/reference	0.93132	0.163
41DAP/reference	0.96546	0.512
42DAP/reference	0.85755	0.22
43DAP/reference	0.78926	0.081
47DAP/reference	0.97957	0.525
52DAP/reference	0.84765	0.25
57DAP/reference	0.53746	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05941	0.85
26DAP/20DAP	0.87952	0.512
34DAP/26DAP	0.89972	0.61
51DAP/34DAP	0.97617	0.807
52DAP/51DAP	1.02728	0.783
53DAP/52DAP	1.03518	0.797
55DAP/53DAP	1.01531	1
57DAP/55DAP	0.98826	0.902
62DAP/57DAP	1.00006	1
68DAP/62DAP	0.97275	0.834
68DAP/14DAP	0.96122	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8686	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.81136	0.317
Immature Eggplant/Mature Eggplant	1.22628
Ripe Pepper/Ripe Tomato	1.38477	0.258
Mature Eggplant/Ripe Tomato	0.88804	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94588	0.907
1-1-2/M82	0.87502	0.958
12-2/M82	1.15881
12-4/M82	1.1908	1
1-3/M82	0.94708	1
2-1-1/M82	1.29661	0.457
2-1/M82	N/A	N/A
2-6/M82	1.04161	1
3-2/M82	0.93986
4-1-1/M82	0.9777	1
4-1/M82	1.11881
4-3-2/M82	1.03418
4-3/M82	1.00506
5-3/M82	0.98618	1
6-2/M82	0.88852	0.481
6-3/M82	0.97331	1
7-1/M82	N/A	N/A
7-2/M82	0.91994	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03453	0.493
IL2-6/WTpooled	0.96524	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.06782	1
IL12-4/WTpooled	0.9888	1
IL1-4/WTpooled	1.08748	1
WT/WTpooled	1.00025	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	1.35544	0.092

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01394	1
DC3000/delta hrp 6h	0.83596	0.95
DC3000/delta hrp 12h	1.10395	1
DC3000/delta hrp 24h	1.0438	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05053	0.27
DC3000 delta B/DC3000 delta AB	1.09823	0.429

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.78041	0.374
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	0.96427	1
Var 0h	0.84536	0.933
Var 12h I row2-row1	1.14496	0.228
Var 12h NI row2-row1	0.85063	0.466
Var 36h I row2-row1	0.97234	1
Var 36h NI row2-row1	0.91928	0.706
Var 60h I row2-row1	1.30333	0.562
Var 60h NI row2-row1	1.03013	1
Time course 0hI-0hNI	1.06721	0.833
Time course 12hI-12hNI	1.03713	0.798
Time course 36hI-36hNI	0.94692	0.269
Time course 60hI-60hNI	1.17727	0.025

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)	0.944	0.428
transgenic ySAMdc/azygous control (breaker)	0.86869	0.49
transgenic ySAMdc/azygous control (red)	0.95883	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00107	0.958

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11161	0.229

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)	1.11315	0.413