Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.7.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8611	0.339
27DAP/17DAP	0.89526	0.764
39DAP/27DAP	0.75355	0.255
41DAP/39DAP	1.33806	0.504
42DAP/41DAP	0.97531	1
43DAP/42DAP	1.14326	1
47DAP/43DAP	1.13431	0.595
52DAP/47DAP	1.19272	0.696
57DAP/52DAP	0.81507	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82627	0.106
17DAP/reference	0.9731	0.503
27DAP/reference	0.99028	0.741
39DAP/reference	1.16631	0.096
41DAP/reference	0.98929	0.814
42DAP/reference	1.11984	0.108
43DAP/reference	1.1267	0.089
47DAP/reference	1.0409	0.593
52DAP/reference	0.95015	0.382
57DAP/reference	0.99261	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93264	0.442
27DAP/17DAP	1.0601	0.872
39DAP/27DAP	1.02413	0.811
41DAP/39DAP	1.01943	1
42DAP/41DAP	0.92375	0.484
43DAP/42DAP	1.02227	1
47DAP/43DAP	1.0743	0.396
52DAP/47DAP	0.89247	0.603
57DAP/52DAP	0.87769	0.068
57DAP/7DAP	0.88659	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.761	0.066
17DAP/reference	0.72421	0.012
27DAP/reference	0.77317	0.01
39DAP/reference	0.75624	0.011
41DAP/reference	0.72837	0.017
42DAP/reference	0.76613	0.011
43DAP/reference	0.71065	0.011
47DAP/reference	1.12455	1
52DAP/reference	0.70496	0.012
57DAP/reference	0.62456	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89706	0.09
17DAP/reference	1.11974	0.471
27DAP/reference	1.00015	1
39DAP/reference	0.94713	0.289
41DAP/reference	0.95889	0.322
42DAP/reference	1.07971	0.39
43DAP/reference	1.29267	0.024
47DAP/reference	1.11365	0.041
52DAP/reference	0.98621	0.576
57DAP/reference	1.00686	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83702	0.052
17DAP/reference	1.03638	0.876
27DAP/reference	0.75797	0.044
39DAP/reference	0.74704	0.018
41DAP/reference	0.89998	0.237
42DAP/reference	1.01833	0.943
43DAP/reference	0.99257	0.712
47DAP/reference	1.27748	0.009
52DAP/reference	0.90029	0.351
57DAP/reference	1.0719	0.47

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99239	1
26DAP/20DAP	0.87767	0.512
34DAP/26DAP	0.98789	1
51DAP/34DAP	1.03062	0.909
52DAP/51DAP	1.04711	1
53DAP/52DAP	1.04826	0.882
55DAP/53DAP	0.95108	0.735
57DAP/55DAP	1.18867	0.805
62DAP/57DAP	0.97993	1
68DAP/62DAP	0.73987
68DAP/14DAP	0.52027

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9589	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00044	0.886
Mature Green Tomato/Ripe Tomato	0.95745	0.66
Immature Eggplant/Mature Eggplant	0.79652	0.254
Ripe Pepper/Ripe Tomato	2.51394	1
Mature Eggplant/Ripe Tomato	1.25039	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04654	1
1-1-2/M82	0.9058
12-2/M82	1.16224
12-4/M82	0.97503	1
1-3/M82	0.78432	0.501
2-1-1/M82	N/A	N/A
2-1/M82	1.09028
2-6/M82	1.12811	0.695
3-2/M82	0.79599
4-1-1/M82	1.10512	1
4-1/M82	1.35299
4-3-2/M82	N/A	N/A
4-3/M82	1.04609	1
5-3/M82	0.93488	0.642
6-2/M82	0.99357
6-3/M82	0.97006	1
7-1/M82	0.83643	1
7-2/M82	0.88308	0.426
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06322
IL2-6/WTpooled	0.78781	0.383
IL7-5/WTpooled	1.26324
IL7-3/WTpooled	0.87141	0.294
IL12-4/WTpooled	0.90647	0.71
IL1-4/WTpooled	0.95806	0.834
WT/WTpooled	1.06408	0.855

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	1.02425	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0792	0.921
DC3000/delta hrp 6h	0.82187	0.95
DC3000/delta hrp 12h	0.99916	1
DC3000/delta hrp 24h	1.01332	0.84

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	0.39241

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96685	1
Exp 36h	1.27787	0.693
Exp 60h	0.82368	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96335	1
Var 0h	1.13372	0.98
Var 12h I row2-row1	1.02924	0.736
Var 12h NI row2-row1	0.85368	0.546
Var 36h I row2-row1	0.99179	1
Var 36h NI row2-row1	0.9743	0.706
Var 60h I row2-row1	1.12002	0.523
Var 60h NI row2-row1	0.80444	0.866
Time course 0hI-0hNI	1.04427	0.662
Time course 12hI-12hNI	1.00931	0.867
Time course 36hI-36hNI	1.10345	0.722
Time course 60hI-60hNI	1.49243	0.009

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)	1.02053	0.748
transgenic ySAMdc/azygous control (breaker)	1.63268	0.162
transgenic ySAMdc/azygous control (red)	1.12491	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01376	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.5772	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.23095	0.086
Manapal/WT (break)	1.10055	1
Manapal/WT (red)	1.10243	1