Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.9.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19334	0.477
27DAP/17DAP	0.67553	0.227
39DAP/27DAP	1.00383	0.769
41DAP/39DAP	1.02211	0.954
42DAP/41DAP	1.09181	0.931
43DAP/42DAP	0.9584	0.887
47DAP/43DAP	0.78851	0.366
52DAP/47DAP	1.14638	0.987
57DAP/52DAP	0.72053	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89602	0.217
17DAP/reference	0.94898	0.503
27DAP/reference	0.99098	0.694
39DAP/reference	0.98599	0.828
41DAP/reference	1.06731	0.808
42DAP/reference	0.87038	0.075
43DAP/reference	1.0619	0.866
47DAP/reference	0.93128	0.258
52DAP/reference	0.92194	0.319
57DAP/reference	1.21925	0.057

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99357	0.847
27DAP/17DAP	1.06414	0.893
39DAP/27DAP	1.06478	0.728
41DAP/39DAP	0.95511	0.91
42DAP/41DAP	1.08151	0.763
43DAP/42DAP	1.07335	0.478
47DAP/43DAP	0.98918	0.947
52DAP/47DAP	1.02969	0.907
57DAP/52DAP	0.89929	0.422
57DAP/7DAP	1.27349	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85629	0.095
17DAP/reference	0.96344	0.389
27DAP/reference	0.77042	0.015
39DAP/reference	0.86826	0.039
41DAP/reference	0.88442	0.06
42DAP/reference	0.84412	0.016
43DAP/reference	0.78428	0.013
47DAP/reference	0.8993	0.128
52DAP/reference	0.67723	0.013
57DAP/reference	0.74765	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98979	0.848
17DAP/reference	0.89834	0.317
27DAP/reference	0.93121	0.292
39DAP/reference	1.07836	0.686
41DAP/reference	1.04073	0.683
42DAP/reference	0.72233	0.073
43DAP/reference	1.05328	0.751
47DAP/reference	0.90217	0.105
52DAP/reference	1.1141	0.417
57DAP/reference	0.85611	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86551	0.23
17DAP/reference	0.91668	0.398
27DAP/reference	0.81437	0.092
39DAP/reference	0.71769	0.017
41DAP/reference	0.82854	0.077
42DAP/reference	0.76013	0.014
43DAP/reference	0.7699	0.03
47DAP/reference	1.00131	0.731
52DAP/reference	0.83744	0.368
57DAP/reference	0.73249	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.48478	0.966
26DAP/20DAP	1.02339	1
34DAP/26DAP	1.18057	1
51DAP/34DAP	1.00659	0.96
52DAP/51DAP	0.93188	1
53DAP/52DAP	0.9283	0.712
55DAP/53DAP	1.37826	0.17
57DAP/55DAP	1.01939	1
62DAP/57DAP	1.26635	0.217
68DAP/62DAP	0.94731	0.787
68DAP/14DAP	0.43452	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81926	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.31826
Mature Green Tomato/Ripe Tomato	2.65777	0.166
Immature Eggplant/Mature Eggplant	1.15794	0.288
Ripe Pepper/Ripe Tomato	0.39551
Mature Eggplant/Ripe Tomato	1.56374	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9982
1-1-2/M82	1.02146	1
12-2/M82	0.80405
12-4/M82	1.16899	1
1-3/M82	0.72941
2-1-1/M82	1.37949
2-1/M82	N/A	N/A
2-6/M82	1.06033	1
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.89576
4-3-2/M82	N/A	N/A
4-3/M82	1.07595
5-3/M82	1.03865	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.06027	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.20775
IL2-6/WTpooled	0.74189	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.22793	0.362
IL12-4/WTpooled	1.13623	0.737
IL1-4/WTpooled	0.99788	1
WT/WTpooled	0.9688	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	0.9209	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08114	0.921
DC3000/delta hrp 6h	1.19815	1
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.13451	0.502

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.92694
DC3000 delta B/DC3000 delta AB	1.06578	0.655

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90446	1
Exp 36h	1.01396	1
Exp 60h	0.93696	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9129	1
Var 0h	0.86502	1
Var 12h I row2-row1	1.20294	0.473
Var 12h NI row2-row1	1.01987	1
Var 36h I row2-row1	0.85815	1
Var 36h NI row2-row1	0.72345	0.549
Var 60h I row2-row1	1.09444	0.448
Var 60h NI row2-row1	1.07784	0.904
Time course 0hI-0hNI	1.06916	0.852
Time course 12hI-12hNI	1.02	0.773
Time course 36hI-36hNI	0.92332	0.202
Time course 60hI-60hNI	1.00739	1

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)	0.91243	0.391
transgenic ySAMdc/azygous control (breaker)	0.77485	0.122
transgenic ySAMdc/azygous control (red)	0.96997	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98048	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73411	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11621	0.14
Manapal/WT (break)	0.93448	1
Manapal/WT (red)	0.97002	0.863