Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.3.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93076	0.464
27DAP/17DAP	0.81058	0.499
39DAP/27DAP	1.39569	0.134
41DAP/39DAP	0.77887	0.222
42DAP/41DAP	1.26723	0.745
43DAP/42DAP	1.16365	1
47DAP/43DAP	0.89268	0.64
52DAP/47DAP	0.88953	0.683
57DAP/52DAP	1.3148	0.72

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08424	0.132
17DAP/reference	0.97029	0.63
27DAP/reference	0.89691	0.176
39DAP/reference	0.9495	0.088
41DAP/reference	0.84009	0.018
42DAP/reference	1.07466	0.287
43DAP/reference	1.26346	0.008
47DAP/reference	1.16647	0.006
52DAP/reference	1.22343	0.018
57DAP/reference	1.24964	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06442	0.736
27DAP/17DAP	1.0072	1
39DAP/27DAP	1.04778	0.636
41DAP/39DAP	1.21925	0.427
42DAP/41DAP	1.1535	0.334
43DAP/42DAP	0.87523	0.056
47DAP/43DAP	1.0581	0.69
52DAP/47DAP	0.9113	0.634
57DAP/52DAP	1.02468	1
57DAP/7DAP	0.78911	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.64596	0.027
17DAP/reference	1.83378	0.007
27DAP/reference	1.68407	0.007
39DAP/reference	1.35596	0.024
41DAP/reference	1.46659	0.016
42DAP/reference	1.51513	0.076
43DAP/reference	1.6183	0.009
47DAP/reference	1.49474	0.015
52DAP/reference	1.68629	0.007
57DAP/reference	1.76773	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09015	0.524
17DAP/reference	1.0945	0.518
27DAP/reference	1.07229	0.583
39DAP/reference	1.32991	0.377
41DAP/reference	0.98438	0.505
42DAP/reference	1.04208	0.843
43DAP/reference	0.97393	0.569
47DAP/reference	1.17109	0.052
52DAP/reference	0.91671	0.131
57DAP/reference	0.84166	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.68608	0.03
17DAP/reference	1.34918	0.317
27DAP/reference	1.82695	0.021
39DAP/reference	1.80405	0.01
41DAP/reference	1.80663	0.008
42DAP/reference	1.76925	0.014
43DAP/reference	1.77923	0.008
47DAP/reference	1.30645	0.006
52DAP/reference	1.7051	0.063
57DAP/reference	1.39633	0.066

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.84056	0.787
26DAP/20DAP	1.49185	0.141
34DAP/26DAP	1.04323	1
51DAP/34DAP	0.93139	0.649
52DAP/51DAP	0.65657	1
53DAP/52DAP	0.91603	0.712
55DAP/53DAP	0.87838	0.592
57DAP/55DAP	1.29531	0.898
62DAP/57DAP	0.28767
68DAP/62DAP	1.80987
68DAP/14DAP	1.64421	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.85177	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.48048	0.063
Mature Green Tomato/Ripe Tomato	1.10347	0.881
Immature Eggplant/Mature Eggplant	1.0819	0.311
Ripe Pepper/Ripe Tomato	0.53708	0.224
Mature Eggplant/Ripe Tomato	1.67242	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95822	0.961
1-1-2/M82	1.08758	1
12-2/M82	0.72344	0.74
12-4/M82	1.02618	1
1-3/M82	1.6646	0.479
2-1-1/M82	1.03253	1
2-1/M82	0.59371	0.322
2-6/M82	1.02178	1
3-2/M82	N/A	N/A
4-1-1/M82	1.01999	1
4-1/M82	1.02003	1
4-3-2/M82	1.38771	0.284
4-3/M82	1.31638	1
5-3/M82	1.2358	0.467
6-2/M82	0.96303	1
6-3/M82	0.88612	1
7-1/M82	1.06261	1
7-2/M82	1.21269	0.385
9-3-2/M82	1.07172	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72543
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.78992
IL1-4/WTpooled	0.7922	0.834
WT/WTpooled	1.24337	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	1.21939	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93092	0.664
DC3000/delta hrp 6h	0.93202	0.95
DC3000/delta hrp 12h	0.992	1
DC3000/delta hrp 24h	1.16505	0.103

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24034	0.045
DC3000 delta B/DC3000 delta AB	1.33412	0.141

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90585	1
Exp 36h	1.26753	1
Exp 60h	1.38469	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95292	1
Var 0h	1.25283	0.594
Var 12h I row2-row1	0.7962	0.357
Var 12h NI row2-row1	1.15841	1
Var 36h I row2-row1	1.15069	0.489
Var 36h NI row2-row1	0.90944	0.743
Var 60h I row2-row1	0.77286	0.439
Var 60h NI row2-row1	0.73863	0.301
Time course 0hI-0hNI	0.83255	0.11
Time course 12hI-12hNI	1.17878	0.25
Time course 36hI-36hNI	1.34083	0.044
Time course 60hI-60hNI	1.87593	0.008

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)	0.91887	0.391
transgenic ySAMdc/azygous control (breaker)	1.29523	0.248
transgenic ySAMdc/azygous control (red)	1.22636	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13506	0.125

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93674	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7533	0.172
Manapal/WT (break)	1.07429	1
Manapal/WT (red)	0.96394	0.503