Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.4.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.65597	0.024
27DAP/17DAP	0.94152	0.572
39DAP/27DAP	1.11439	0.882
41DAP/39DAP	0.8834	0.63
42DAP/41DAP	0.79572	0.774
43DAP/42DAP	1.20416	0.974
47DAP/43DAP	1.17328	0.668
52DAP/47DAP	0.98723	0.859
57DAP/52DAP	1.03621	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37631	0.022
17DAP/reference	1.16697	0.03
27DAP/reference	1.03165	0.548
39DAP/reference	1.02381	0.654
41DAP/reference	1.04216	0.221
42DAP/reference	0.86259	0.012
43DAP/reference	1.02177	0.705
47DAP/reference	0.9326	0.127
52DAP/reference	0.86735	0.105
57DAP/reference	0.94225	0.358

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.31507	0.026
27DAP/17DAP	1.06715	0.798
39DAP/27DAP	0.82064	0.176
41DAP/39DAP	0.76687	0.164
42DAP/41DAP	0.89086	0.456
43DAP/42DAP	1.28439	0.134
47DAP/43DAP	1.03179	1
52DAP/47DAP	0.83095	0.546
57DAP/52DAP	0.97754	0.756
57DAP/7DAP	0.49874	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1888	0.091
17DAP/reference	0.9319	0.124
27DAP/reference	0.92156	0.071
39DAP/reference	0.96471	0.354
41DAP/reference	0.9142	0.094
42DAP/reference	0.90516	0.053
43DAP/reference	0.9514	0.23
47DAP/reference	0.84714	0.128
52DAP/reference	0.78889	0.016
57DAP/reference	0.81099	0.042

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21025	0.047
17DAP/reference	1.30635	0.203
27DAP/reference	1.03556	0.798
39DAP/reference	1.04567	0.639
41DAP/reference	0.99193	0.459
42DAP/reference	0.85598	0.046
43DAP/reference	1.05183	0.611
47DAP/reference	0.88514	0.014
52DAP/reference	1.1178	0.023
57DAP/reference	1.16484	0.252

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13911	0.046
17DAP/reference	1.06273	0.398
27DAP/reference	0.9297	0.126
39DAP/reference	0.8817	0.033
41DAP/reference	0.92823	0.185
42DAP/reference	1.12513	0.816
43DAP/reference	0.95434	0.523
47DAP/reference	0.91259	0.199
52DAP/reference	0.85945	0.289
57DAP/reference	0.76065	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94511	1
26DAP/20DAP	0.91687	1
34DAP/26DAP	0.9615	0.944
51DAP/34DAP	1.25873	0.326
52DAP/51DAP	1.07826	0.842
53DAP/52DAP	0.92531	0.79
55DAP/53DAP	0.97275	0.807
57DAP/55DAP	0.878	0.468
62DAP/57DAP	1.00137	1
68DAP/62DAP	0.84154	0.245
68DAP/14DAP	0.78141	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.14392	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.70783	0.015
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	0.8322
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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.82871
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	2.54156
WT/WTpooled	0.78828

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05476	0.921
DC3000/delta hrp 6h	1.03156	1
DC3000/delta hrp 12h	1.01877	1
DC3000/delta hrp 24h	0.95003	0.692

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	0.77096	1
Exp 36h	0.9479	1
Exp 60h	0.7323	0.343

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	0.69573	0.226
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	5.43541

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)	1.11968	0.612
transgenic ySAMdc/azygous control (breaker)	1.32788	0.178
transgenic ySAMdc/azygous control (red)	1.1355	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9425	0.12

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.737	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.60886	0.096
Manapal/WT (break)	1.48396	0.123
Manapal/WT (red)	0.96035	0.863