Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.17.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.52401	0.485
27DAP/17DAP	0.74712	0.403
39DAP/27DAP	0.69947	0.352
41DAP/39DAP	0.8022	0.412
42DAP/41DAP	0.83026	1
43DAP/42DAP	1.15176	1
47DAP/43DAP	1.3269	0.825
52DAP/47DAP	1.68191	0.228
57DAP/52DAP	1.03949	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99316	0.707
17DAP/reference	1.1469	0.018
27DAP/reference	1.08244	0.121
39DAP/reference	1.12413	0.076
41DAP/reference	1.14043	0.05
42DAP/reference	1.10867	0.01
43DAP/reference	1.01607	0.812
47DAP/reference	1.20498	0.004
52DAP/reference	1.0148	0.766
57DAP/reference	0.9401	0.106

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82136	0.336
27DAP/17DAP	1.08113	0.719
39DAP/27DAP	1.10117	0.663
41DAP/39DAP	0.97122	0.945
42DAP/41DAP	1.16851	0.947
43DAP/42DAP	1.07344	0.478
47DAP/43DAP	1.00292	0.977
52DAP/47DAP	0.9846	0.93
57DAP/52DAP	0.93442	0.596
57DAP/7DAP	0.86675	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89737	0.071
17DAP/reference	0.99405	0.599
27DAP/reference	0.87801	0.013
39DAP/reference	0.97759	0.146
41DAP/reference	1.03692	0.577
42DAP/reference	0.97185	0.262
43DAP/reference	0.96843	0.183
47DAP/reference	1.01321	1
52DAP/reference	0.97412	0.398
57DAP/reference	0.97447	0.396

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00272	0.965
17DAP/reference	1.12101	0.01
27DAP/reference	1.10361	0.463
39DAP/reference	1.13073	0.15
41DAP/reference	1.06704	0.513
42DAP/reference	1.00431	1
43DAP/reference	1.02621	0.949
47DAP/reference	0.9904	0.59
52DAP/reference	1.15461	0.013
57DAP/reference	1.13787	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93039	0.036
17DAP/reference	0.96129	0.426
27DAP/reference	0.93213	0.174
39DAP/reference	0.99005	0.544
41DAP/reference	0.97619	0.512
42DAP/reference	0.93366	0.087
43DAP/reference	1.05127	0.634
47DAP/reference	1.12038	0.008
52DAP/reference	0.94974	0.551
57DAP/reference	1.02782	0.909

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12688	0.966
26DAP/20DAP	0.76947	0.317
34DAP/26DAP	1.0533	1
51DAP/34DAP	1.05967	0.565
52DAP/51DAP	1.0756	0.758
53DAP/52DAP	1.17193	0.678
55DAP/53DAP	0.98057	0.761
57DAP/55DAP	1.07269	0.975
62DAP/57DAP	0.96195	0.994
68DAP/62DAP	0.86369	0.641
68DAP/14DAP	0.93701	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7483	0.079

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.85077	0.287
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.42222	0.072
Ripe Pepper/Ripe Tomato	3.46584	0.258
Mature Eggplant/Ripe Tomato	5.09846	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.87996	0.605
1-1-2/M82	1.04028	0.977
12-2/M82	0.94302	0.678
12-4/M82	1.0796	1
1-3/M82	0.94162	0.441
2-1-1/M82	0.95426	0.784
2-1/M82	1.17704	1
2-6/M82	0.94593	1
3-2/M82	1.02159
4-1-1/M82	1.03829	1
4-1/M82	0.82915
4-3-2/M82	0.89704
4-3/M82	1.01096	1
5-3/M82	1.01799	1
6-2/M82	1.01594	1
6-3/M82	0.95445	1
7-1/M82	1.05726	0.598
7-2/M82	0.94739	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01503	1
IL2-6/WTpooled	0.88259	0.473
IL7-5/WTpooled	0.94938	1
IL7-3/WTpooled	1.19132	1
IL12-4/WTpooled	0.90135	0.581
IL1-4/WTpooled	1.73991	1
WT/WTpooled	0.9319	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	1.28529

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9987	1
DC3000/delta hrp 6h	0.87488	0.95
DC3000/delta hrp 12h	1.01836	1
DC3000/delta hrp 24h	1.16043	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.05389	0.544

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.80744	1
Exp 36h	1.16741	0.693
Exp 60h	1.12254	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99501	1
Var 0h	1.83394	1
Var 12h I row2-row1	1.05107	0.795
Var 12h NI row2-row1	0.86506	0.713
Var 36h I row2-row1	0.86062	1
Var 36h NI row2-row1	1.29525	1
Var 60h I row2-row1	0.90062	0.832
Var 60h NI row2-row1	1.40159	0.904
Time course 0hI-0hNI	1.10338	0.833
Time course 12hI-12hNI	0.9835	0.924
Time course 36hI-36hNI	0.81281	0.077
Time course 60hI-60hNI	0.96569	0.646

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)	1.05334	0.347
transgenic ySAMdc/azygous control (breaker)	0.92124	0.49
transgenic ySAMdc/azygous control (red)	0.93565	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	1.11278	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11082	1
Manapal/WT (break)	0.84693	0.333
Manapal/WT (red)	0.93873	0.728