Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.8.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81788	0.324
27DAP/17DAP	0.80197	0.452
39DAP/27DAP	1.23804	0.725
41DAP/39DAP	0.90093	0.591
42DAP/41DAP	0.84432	1
43DAP/42DAP	0.98468	0.93
47DAP/43DAP	0.7156	0.183
52DAP/47DAP	0.90075	0.702
57DAP/52DAP	0.91443	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97334	0.526
17DAP/reference	1.05464	0.427
27DAP/reference	1.07593	0.264
39DAP/reference	1.01532	0.889
41DAP/reference	1.15035	0.133
42DAP/reference	0.94292	0.182
43DAP/reference	0.99209	0.82
47DAP/reference	0.9994	0.72
52DAP/reference	0.85087	0.118
57DAP/reference	0.80332	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76126	0.17
27DAP/17DAP	1.10734	0.805
39DAP/27DAP	1.02043	0.799
41DAP/39DAP	1.03122	0.914
42DAP/41DAP	1.07986	0.904
43DAP/42DAP	1.19014	0.25
47DAP/43DAP	1.10824	0.581
52DAP/47DAP	0.66163	0.131
57DAP/52DAP	1.25189	0.232
57DAP/7DAP	1.50687	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28572	0.053
17DAP/reference	1.0236	1
27DAP/reference	1.15651	0.035
39DAP/reference	1.38083	0.044
41DAP/reference	1.27455	0.083
42DAP/reference	1.47265	0.024
43DAP/reference	1.41733	0.009
47DAP/reference	1.37839	0.073
52DAP/reference	1.48704	0.013
57DAP/reference	1.19443	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08148	0.559
17DAP/reference	0.94921	0.347
27DAP/reference	0.92926	0.249
39DAP/reference	0.99341	0.569
41DAP/reference	0.79785	0.083
42DAP/reference	0.94797	0.355
43DAP/reference	1.12202	0.489
47DAP/reference	0.99712	0.749
52DAP/reference	0.94949	0.38
57DAP/reference	1.18399	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10835	0.287
17DAP/reference	2.07083	0.298
27DAP/reference	1.10797	0.575
39DAP/reference	1.16872	0.151
41DAP/reference	1.08665	0.714
42DAP/reference	0.9521	0.552
43DAP/reference	0.98097	0.639
47DAP/reference	0.99283	0.626
52DAP/reference	0.95512	0.538
57DAP/reference	0.77315	0.044

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99299	1
26DAP/20DAP	1.01492	1
34DAP/26DAP	0.99394	0.945
51DAP/34DAP	1.45013	0.303
52DAP/51DAP	0.92116	1
53DAP/52DAP	1.12329	0.91
55DAP/53DAP	1.07774	0.922
57DAP/55DAP	0.98249	0.854
62DAP/57DAP	0.99267	0.994
68DAP/62DAP	0.76543	0.118
68DAP/14DAP	0.68418	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.55169	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.7494	0.437
Immature Eggplant/Mature Eggplant	2.0502	0.06
Ripe Pepper/Ripe Tomato	0.99584	1
Mature Eggplant/Ripe Tomato	1.08388	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.78555
12-2/M82	N/A	N/A
12-4/M82	0.93151	1
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	0.67156
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.91375
4-3-2/M82	0.71444
4-3/M82	0.99136	1
5-3/M82	1.03378	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.19333
7-2/M82	1.03942
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	1.48938
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.13064	1
IL12-4/WTpooled	1.53693	0.516
IL1-4/WTpooled	1.12641	1
WT/WTpooled	1.07767	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	0.97546	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18886	0.396
DC3000/delta hrp 6h	0.72802	0.786
DC3000/delta hrp 12h	1.0499	1
DC3000/delta hrp 24h	1.0059	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.34626
DC3000 delta B/DC3000 delta AB	1.13298	0.381

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00706	1
Exp 36h	1.16313	1
Exp 60h	1.2772	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0245	1
Var 0h	0.48539	1
Var 12h I row2-row1	1.14193	0.506
Var 12h NI row2-row1	1.21411	0.34
Var 36h I row2-row1	0.96848	1
Var 36h NI row2-row1	0.98329	0.791
Var 60h I row2-row1	0.86595	0.285
Var 60h NI row2-row1	1.01855	1
Time course 0hI-0hNI	1.01173	1
Time course 12hI-12hNI	1.02981	0.709
Time course 36hI-36hNI	1.14704	0.08
Time course 60hI-60hNI	1.64974	0.008

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)	1.07303	0.36
transgenic ySAMdc/azygous control (breaker)	0.94047	0.49
transgenic ySAMdc/azygous control (red)	0.85703	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08853	0.057

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83235	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96197	1
Manapal/WT (break)	0.95389	1
Manapal/WT (red)	1.05774	1