Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.19.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.72682	0.178
27DAP/17DAP	1.3681	0.746
39DAP/27DAP	0.92412	0.67
41DAP/39DAP	0.72219	0.164
42DAP/41DAP	0.94431	1
43DAP/42DAP	1.01999	1
47DAP/43DAP	1.46853	0.253
52DAP/47DAP	1.67752	0.506
57DAP/52DAP	0.99051	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19997	0.089
17DAP/reference	1.11482	0.178
27DAP/reference	1.2705	0.146
39DAP/reference	1.15833	0.249
41DAP/reference	1.24887	0.019
42DAP/reference	1.10043	0.241
43DAP/reference	0.98222	0.708
47DAP/reference	0.97729	0.366
52DAP/reference	1.07201	0.371
57DAP/reference	0.99272	0.639

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07821	1
27DAP/17DAP	0.81794	0.475
39DAP/27DAP	1.02946	0.728
41DAP/39DAP	1.48608	0.183
42DAP/41DAP	0.93824	0.617
43DAP/42DAP	1.33226	0.324
47DAP/43DAP	0.9874	0.919
52DAP/47DAP	1.03356	0.986
57DAP/52DAP	1.46602	0.045
57DAP/7DAP	3.49704

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70737	0.08
17DAP/reference	0.87507	0.056
27DAP/reference	1.00464	1
39DAP/reference	0.68701	0.013
41DAP/reference	0.67283	0.013
42DAP/reference	0.91764	0.248
43DAP/reference	1.17145	0.087
47DAP/reference	0.74629	0.079
52DAP/reference	0.85925	0.019
57DAP/reference	1.10863	0.108

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06204	0.842
17DAP/reference	1.08537	0.181
27DAP/reference	1.25678	0.075
39DAP/reference	1.04463	0.891
41DAP/reference	0.97608	0.441
42DAP/reference	0.97045	0.433
43DAP/reference	1.26307	0.179
47DAP/reference	0.91338	0.107
52DAP/reference	1.13535	0.098
57DAP/reference	1.02979	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82278	0.047
17DAP/reference	0.93385	0.508
27DAP/reference	0.94282	0.286
39DAP/reference	1.04944	0.67
41DAP/reference	0.98021	0.56
42DAP/reference	1.19259	0.114
43DAP/reference	0.87259	0.179
47DAP/reference	0.92479	0.259
52DAP/reference	0.89999	0.31
57DAP/reference	1.13083	0.452

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9757	1
26DAP/20DAP	1.07845	0.924
34DAP/26DAP	1.26694	1
51DAP/34DAP	1.15305	0.957
52DAP/51DAP	1.07208	0.915
53DAP/52DAP	1.15395	0.537
55DAP/53DAP	1.00393	0.886
57DAP/55DAP	0.98718	0.867
62DAP/57DAP	1.04313	1
68DAP/62DAP	1.0484	1
68DAP/14DAP	1.06152	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.22971	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.12821	0.287
Mature Green Tomato/Ripe Tomato	0.29721	0.287
Immature Eggplant/Mature Eggplant	0.54865	0.068
Ripe Pepper/Ripe Tomato	1.65496	1
Mature Eggplant/Ripe Tomato	0.47509

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.75717	0.387
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.53229
IL2-6/WTpooled	0.96813	1
IL7-5/WTpooled	1.09019	1
IL7-3/WTpooled	1.03911	1
IL12-4/WTpooled	0.92658	1
IL1-4/WTpooled	1.18102	1
WT/WTpooled	0.91862	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	1.23658	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93765	1
DC3000/delta hrp 6h	1.08926	1
DC3000/delta hrp 12h	1.12463	1
DC3000/delta hrp 24h	0.91113	0.618

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	7.32736
DC3000 delta B/DC3000 delta AB	0.48552

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10961	1
Exp 36h	0.66344	0.406
Exp 60h	0.7236	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	1.11808	1
Var 0h	0.89476	1
Var 12h I row2-row1	1.02486	1
Var 12h NI row2-row1	1.06226	0.649
Var 36h I row2-row1	0.74639	0.368
Var 36h NI row2-row1	0.48806	0.549
Var 60h I row2-row1	1.01389	1
Var 60h NI row2-row1	0.96864	1
Time course 0hI-0hNI	0.85278	1
Time course 12hI-12hNI	1.05926	0.724
Time course 36hI-36hNI	1.12179	0.114
Time course 60hI-60hNI	1.43677	0.115

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)	2.20576	0.232
transgenic ySAMdc/azygous control (breaker)	1.46892	0.178
transgenic ySAMdc/azygous control (red)	1.25469	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9635	0.431

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06438	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.60918	0.307
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.68263	0.274