Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.4.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.57921	0.291
27DAP/17DAP	1.25726	0.842
39DAP/27DAP	0.64697	0.507
41DAP/39DAP	1.11229	0.701
42DAP/41DAP	1.02143	1
43DAP/42DAP	0.86476	0.713
47DAP/43DAP	1.23901	0.715
52DAP/47DAP	1.75381	0.367
57DAP/52DAP	1.38553	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94566	0.362
17DAP/reference	1.05445	0.154
27DAP/reference	1.08674	0.048
39DAP/reference	1.03483	0.403
41DAP/reference	1.05317	0.203
42DAP/reference	0.90253	0.015
43DAP/reference	1.05412	0.163
47DAP/reference	0.93531	0.077
52DAP/reference	0.90526	0.162
57DAP/reference	0.9182	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28887	0.379
27DAP/17DAP	1.0549	0.842
39DAP/27DAP	0.90259	0.482
41DAP/39DAP	1.13214	0.656
42DAP/41DAP	0.9367	0.583
43DAP/42DAP	1.01542	1
47DAP/43DAP	1.003	1
52DAP/47DAP	0.97084	0.907
57DAP/52DAP	0.94512	0.626
57DAP/7DAP	0.54369

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78653	0.082
17DAP/reference	0.9712	0.447
27DAP/reference	0.9549	0.264
39DAP/reference	1.04756	1
41DAP/reference	1.13261	0.291
42DAP/reference	1.1648	0.1
43DAP/reference	0.85375	0.028
47DAP/reference	0.97449	0.504
52DAP/reference	1.1593	0.081
57DAP/reference	0.93486	0.27

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96506	0.655
17DAP/reference	1.00155	0.851
27DAP/reference	0.88187	0.229
39DAP/reference	0.96247	0.469
41DAP/reference	0.89727	0.11
42DAP/reference	1.25038	1
43DAP/reference	1.06667	0.949
47DAP/reference	0.93109	0.069
52DAP/reference	0.91961	0.327
57DAP/reference	1.02744	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85394	0.047
17DAP/reference	0.93942	0.308
27DAP/reference	1.02024	1
39DAP/reference	0.984	0.643
41DAP/reference	0.91408	0.119
42DAP/reference	1.08119	0.612
43DAP/reference	0.84919	0.068
47DAP/reference	0.9346	0.161
52DAP/reference	0.9944	0.747
57DAP/reference	0.78023	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.82425	0.566
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.12643	1
51DAP/34DAP	1.18813	0.978
52DAP/51DAP	0.83478	1
53DAP/52DAP	1.2685	0.319
55DAP/53DAP	0.79565	0.544
57DAP/55DAP	0.91661	0.644
62DAP/57DAP	1.01172	1
68DAP/62DAP	0.97027	0.81
68DAP/14DAP	0.8074	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.84372	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.77632	0.077
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	1.03945
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	1.18374
3-2/M82	1.02069
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	0.89617	0.364
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.80886
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	0.80472	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.8192	0.418
IL12-4/WTpooled	0.37134	0.554
IL1-4/WTpooled	1.01078
WT/WTpooled	1.10429	0.874

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	0.82743	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96771	1
DC3000/delta hrp 6h	1.10473	1
DC3000/delta hrp 12h	1.02066	1
DC3000/delta hrp 24h	0.85393	0.136

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85159	1
Exp 36h	0.77392	0.539
Exp 60h	0.98342	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.9997	1
transgenic ySAMdc/azygous control (breaker)	0.84893	0.251
transgenic ySAMdc/azygous control (red)	1.06749	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95788	0.126

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12281	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.6821	0.088
Manapal/WT (break)	1.2062	1
Manapal/WT (red)	1.13852	1