Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.19.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03354	0.964
27DAP/17DAP	1.06566	0.89
39DAP/27DAP	1.24726	0.752
41DAP/39DAP	0.83233	0.501
42DAP/41DAP	0.86055	1
43DAP/42DAP	0.96131	0.91
47DAP/43DAP	1.32527	0.394
52DAP/47DAP	1.04103	0.984
57DAP/52DAP	1.16434	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81413	0.08
17DAP/reference	0.86178	0.041
27DAP/reference	0.92643	0.385
39DAP/reference	0.92022	0.333
41DAP/reference	0.82088	0.065
42DAP/reference	0.85115	0.005
43DAP/reference	1.00435	0.904
47DAP/reference	1.00709	0.674
52DAP/reference	1.0767	0.576
57DAP/reference	1.19634	0.061

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	7.6076	0.464
27DAP/17DAP	1.5211	0.554
39DAP/27DAP	0.91634	0.628
41DAP/39DAP	1.26009	0.238
42DAP/41DAP	1.38331	0.81
43DAP/42DAP	1.11502	0.788
47DAP/43DAP	1.13283	0.88
52DAP/47DAP	1.25907	0.428
57DAP/52DAP	1.44678	0.35
57DAP/7DAP	2.24146	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85391	0.095
17DAP/reference	0.87733	0.144
27DAP/reference	0.82786	0.012
39DAP/reference	1.10316	0.779
41DAP/reference	0.82445	0.064
42DAP/reference	0.76602	0.063
43DAP/reference	0.91701	0.292
47DAP/reference	0.92941	0.168
52DAP/reference	0.7976	0.013
57DAP/reference	0.90689	0.24

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03747	0.907
17DAP/reference	0.97856	0.487
27DAP/reference	0.99398	0.642
39DAP/reference	0.97382	0.497
41DAP/reference	0.94319	0.357
42DAP/reference	0.94392	0.392
43DAP/reference	0.85324	0.087
47DAP/reference	0.85574	0.094
52DAP/reference	0.97217	0.469
57DAP/reference	1.00905	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88543	0.214
17DAP/reference	1.11528	0.842
27DAP/reference	0.91639	0.133
39DAP/reference	0.95995	0.43
41DAP/reference	0.85859	0.077
42DAP/reference	0.99704	0.816
43DAP/reference	0.92173	0.348
47DAP/reference	0.78139	0.019
52DAP/reference	0.97557	0.675
57DAP/reference	1.39366	0.01

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13708	1
26DAP/20DAP	0.87838	1
34DAP/26DAP	0.92819	0.898
51DAP/34DAP	1.34918	0.73
52DAP/51DAP	N/A	N/A
53DAP/52DAP	4.6066	0.58
55DAP/53DAP	1.26643	0.82
57DAP/55DAP	0.87878	0.508
62DAP/57DAP	1.43543	0.935
68DAP/62DAP	0.88273	0.747
68DAP/14DAP	1.428	0.035

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99482	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.58761	0.21
Mature Green Tomato/Ripe Tomato	0.81661	0.148
Immature Eggplant/Mature Eggplant	1.35672
Ripe Pepper/Ripe Tomato	1.04621	1
Mature Eggplant/Ripe Tomato	0.4685	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.16493	0.877
1-1-2/M82	1.04375	1
12-2/M82	N/A	N/A
12-4/M82	0.8591	0.619
1-3/M82	N/A	N/A
2-1-1/M82	0.90771	0.92
2-1/M82	1.76139
2-6/M82	0.81181	1
3-2/M82	N/A	N/A
4-1-1/M82	1.14197
4-1/M82	N/A	N/A
4-3-2/M82	1.16734
4-3/M82	0.99819	1
5-3/M82	1.10178	1
6-2/M82	1.13984	1
6-3/M82	0.92211	1
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	N/A	N/A
IL2-6/WTpooled	0.95339
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.59429
IL12-4/WTpooled	1.02118	1
IL1-4/WTpooled	1.10786	0.426
WT/WTpooled	0.95988	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	1.27425	0.075

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95827	1
DC3000/delta hrp 6h	0.85549	0.95
DC3000/delta hrp 12h	1.03465	1
DC3000/delta hrp 24h	1.04455	1

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	0.99928

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	0.94104	1
Var 0h	1.03	1
Var 12h I row2-row1	0.89274	0.627
Var 12h NI row2-row1	0.98309	0.906
Var 36h I row2-row1	1.02272	1
Var 36h NI row2-row1	0.7213	0.584
Var 60h I row2-row1	1.78886	1
Var 60h NI row2-row1	0.70193	0.932
Time course 0hI-0hNI	1.09583	0.574
Time course 12hI-12hNI	0.98953	0.991
Time course 36hI-36hNI	1.50035	0.01
Time course 60hI-60hNI	1.9173	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)	0.97068	0.614
transgenic ySAMdc/azygous control (breaker)	1.07885	1
transgenic ySAMdc/azygous control (red)	0.88217	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06503	0.234

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77056	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.28873	0.307
Manapal/WT (break)	1.01639	1
Manapal/WT (red)	0.78492	0.199