Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.17.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23658	0.463
27DAP/17DAP	1.25137	0.849
39DAP/27DAP	0.64316	0.278
41DAP/39DAP	1.03246	0.973
42DAP/41DAP	1.36851	0.825
43DAP/42DAP	0.98906	0.931
47DAP/43DAP	1.31501	0.332
52DAP/47DAP	0.93948	0.761
57DAP/52DAP	1.16591	0.955

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9967	0.616
17DAP/reference	1.03513	0.907
27DAP/reference	1.11731	0.394
39DAP/reference	1.1123	0.504
41DAP/reference	1.0826	0.759
42DAP/reference	1.12771	0.352
43DAP/reference	1.01868	1
47DAP/reference	1.25925	0.055
52DAP/reference	1.37201	0.096
57DAP/reference	1.16704	0.291

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.49981	0.525
27DAP/17DAP	0.88458
39DAP/27DAP	0.86261	0.371
41DAP/39DAP	0.88126	0.849
42DAP/41DAP	0.89175	0.481
43DAP/42DAP	0.93571	0.482
47DAP/43DAP	1.06355	0.892
52DAP/47DAP	0.98279	0.93
57DAP/52DAP	1.01706	0.921
57DAP/7DAP	1.26639

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81524	0.183
17DAP/reference	0.83424	0.192
27DAP/reference	1.23492	0.551
39DAP/reference	0.7929	0.109
41DAP/reference	0.95928	0.431
42DAP/reference	0.82861	0.063
43DAP/reference	0.95575	0.385
47DAP/reference	0.9747	0.671
52DAP/reference	1.3006	0.113
57DAP/reference	0.84521	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10954
17DAP/reference	0.73292	0.043
27DAP/reference	1.1435	0.133
39DAP/reference	1.20284	0.355
41DAP/reference	1.16457	0.122
42DAP/reference	1.15957	0.195
43DAP/reference	0.92248	0.486
47DAP/reference	1.25884	0.034
52DAP/reference	1.03161	1
57DAP/reference	0.82689	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97403	0.566
17DAP/reference	0.84387	0.305
27DAP/reference	1.30539	0.596
39DAP/reference	1.10109	0.512
41DAP/reference	1.39048	0.023
42DAP/reference	1.05324	1
43DAP/reference	1.51209	0.01
47DAP/reference	1.11635	0.14
52DAP/reference	1.15499	0.862
57DAP/reference	1.26355	0.332

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88909	1
26DAP/20DAP	0.89169	1
34DAP/26DAP	0.77162	0.565
51DAP/34DAP	0.5425	0.06
52DAP/51DAP	1.19905	0.836
53DAP/52DAP	1.09262	0.929
55DAP/53DAP	1.62739	0.054
57DAP/55DAP	1.09867	1
62DAP/57DAP	1.01398	1
68DAP/62DAP	0.97434	0.885
68DAP/14DAP	0.89891

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83143	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
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	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	N/A	N/A
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	N/A	N/A
IL2-6/WTpooled	1.16829	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.56042	0.294
IL12-4/WTpooled	0.96613	1
IL1-4/WTpooled	0.90105	0.834
WT/WTpooled	1.18447	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	0.33757

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.63262
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.1173	0.887

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	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	1.02854
Var 0h	N/A	N/A
Var 12h I row2-row1	0.96522
Var 12h NI row2-row1	0.96269	0.466
Var 36h I row2-row1	0.94971	1
Var 36h NI row2-row1	1.09461	1
Var 60h I row2-row1	0.9334	0.439
Var 60h NI row2-row1	0.65241	1
Time course 0hI-0hNI	1.10858	0.537
Time course 12hI-12hNI	0.97179	0.864
Time course 36hI-36hNI	1.29714	0.008
Time course 60hI-60hNI	1.46041	0.042

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.88401	0.49
transgenic ySAMdc/azygous control (red)	1.01991	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	1.34551	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.41072	1
Manapal/WT (break)	1.11582	1
Manapal/WT (red)	N/A	N/A