Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.1.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99006	0.858
27DAP/17DAP	1.00403	1
39DAP/27DAP	0.9347	0.641
41DAP/39DAP	1.37848	0.344
42DAP/41DAP	1.59001	0.33
43DAP/42DAP	0.8541	0.712
47DAP/43DAP	0.9384	0.729
52DAP/47DAP	1.43205	0.485
57DAP/52DAP	0.84266	0.708

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01131	1
17DAP/reference	0.97678	0.503
27DAP/reference	0.89942	0.106
39DAP/reference	1.0029	1
41DAP/reference	1.03248	0.451
42DAP/reference	1.0633	0.151
43DAP/reference	1.0842	0.025
47DAP/reference	1.00549	1
52DAP/reference	0.90945	0.115
57DAP/reference	0.9235	0.091

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02118	0.881
27DAP/17DAP	1.00342	0.969
39DAP/27DAP	1.10196	0.514
41DAP/39DAP	1.05145	0.914
42DAP/41DAP	1.11397	0.514
43DAP/42DAP	1.07168	0.627
47DAP/43DAP	1.04602	0.92
52DAP/47DAP	1.08865	0.724
57DAP/52DAP	0.98528	0.793
57DAP/7DAP	1.32682	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05218	0.718
17DAP/reference	0.99304	0.599
27DAP/reference	1.01198	0.804
39DAP/reference	0.92025	0.043
41DAP/reference	0.86383	0.056
42DAP/reference	0.97811	0.371
43DAP/reference	0.8514	0.018
47DAP/reference	0.96116	0.504
52DAP/reference	0.86321	0.019
57DAP/reference	0.84919	0.069

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17501	0.061
17DAP/reference	1.10247	0.079
27DAP/reference	1.18978	0.072
39DAP/reference	1.03321	0.769
41DAP/reference	1.12026	0.672
42DAP/reference	1.12561	0.433
43DAP/reference	1.31769	0.035
47DAP/reference	1.01348	1
52DAP/reference	1.14454	0.024
57DAP/reference	1.43815	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97987	0.489
17DAP/reference	0.98166	0.658
27DAP/reference	0.83818	0.025
39DAP/reference	0.86955	0.05
41DAP/reference	0.92131	0.058
42DAP/reference	1.08935	0.51
43DAP/reference	1.05487	0.721
47DAP/reference	1.20859	0.007
52DAP/reference	0.92595	0.505
57DAP/reference	1.22123	0.362

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04956	0.966
26DAP/20DAP	0.92677	1
34DAP/26DAP	1.14679	1
51DAP/34DAP	0.76981	0.246
52DAP/51DAP	1.66832	0.431
53DAP/52DAP	1.02823	0.91
55DAP/53DAP	0.92759	0.563
57DAP/55DAP	0.94198	0.744
62DAP/57DAP	1.26092	0.115
68DAP/62DAP	0.80445	0.609
68DAP/14DAP	0.68424	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87711	0.378

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.13765	0.287
Mature Green Tomato/Ripe Tomato	0.76635	0.132
Immature Eggplant/Mature Eggplant	1.06875	0.683
Ripe Pepper/Ripe Tomato	1.14276	1
Mature Eggplant/Ripe Tomato	0.54718	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00967	1
1-1-2/M82	0.9721	1
12-2/M82	1.08198	1
12-4/M82	0.9133	1
1-3/M82	1.11244	1
2-1-1/M82	1.23988	0.689
2-1/M82	0.84985
2-6/M82	0.95046	1
3-2/M82	0.92196
4-1-1/M82	1.00019	1
4-1/M82	0.95016	1
4-3-2/M82	1.03503	1
4-3/M82	1.00543	1
5-3/M82	0.95148	1
6-2/M82	0.96114	1
6-3/M82	1.08676	1
7-1/M82	1.00561	1
7-2/M82	1.13182	0.385
9-3-2/M82	0.97752	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.19446	1
IL2-6/WTpooled	1.17551
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.90597	1
IL12-4/WTpooled	0.82777	1
IL1-4/WTpooled	1.05226	0.426
WT/WTpooled	1.02915	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	0.9508	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10303	0.846
DC3000/delta hrp 6h	1.02848	1
DC3000/delta hrp 12h	1.37897	1
DC3000/delta hrp 24h	0.96723	0.818

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.23951	0.29
DC3000 delta B/DC3000 delta AB	1.10409	0.377

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00191	1
Exp 36h	1.07265	1
Exp 60h	0.92131	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92648	1
Var 0h	1.12117	0.936
Var 12h I row2-row1	1.00086	1
Var 12h NI row2-row1	0.98554	1
Var 36h I row2-row1	1.16986	1
Var 36h NI row2-row1	1.58041	1
Var 60h I row2-row1	1.23532	0.562
Var 60h NI row2-row1	1.08939	1
Time course 0hI-0hNI	1.05541	0.852
Time course 12hI-12hNI	0.98648	0.94
Time course 36hI-36hNI	0.97668	0.54
Time course 60hI-60hNI	1.1274	0.115

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)	0.95112	0.409
transgenic ySAMdc/azygous control (breaker)	1.09122	1
transgenic ySAMdc/azygous control (red)	1.00201	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03799	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97119	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98318	1
Manapal/WT (break)	0.8789	0.333
Manapal/WT (red)	1.45154	0.222