Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.17.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27153	0.739
27DAP/17DAP	1.09636	0.857
39DAP/27DAP	1.29808	0.335
41DAP/39DAP	0.72655	0.147
42DAP/41DAP	0.77278	0.774
43DAP/42DAP	1.15653	1
47DAP/43DAP	0.79792	0.402
52DAP/47DAP	1.2331	0.652
57DAP/52DAP	1.11868	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10538	0.587
17DAP/reference	1.08349	0.306
27DAP/reference	1.07574	0.623
39DAP/reference	0.89043	0.136
41DAP/reference	0.98493	0.814
42DAP/reference	1.1559	0.035
43DAP/reference	1.03223	0.758
47DAP/reference	1.20066	0.142
52DAP/reference	1.29724	0.076
57DAP/reference	1.25153	0.109

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.198	0.036
27DAP/17DAP	1.20675	0.55
39DAP/27DAP	0.92093	0.514
41DAP/39DAP	1.15389	1
42DAP/41DAP	1.11438	0.81
43DAP/42DAP	0.99251	0.928
47DAP/43DAP	0.94013	0.577
52DAP/47DAP	1.06589	0.9
57DAP/52DAP	0.9778	0.756
57DAP/7DAP	1.42563	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86721	0.183
17DAP/reference	0.7471	0.011
27DAP/reference	1.01832	1
39DAP/reference	0.85898	0.17
41DAP/reference	0.99699	0.709
42DAP/reference	0.90105	0.063
43DAP/reference	0.82132	0.064
47DAP/reference	1.17699	0.07
52DAP/reference	0.82236	0.017
57DAP/reference	0.74349	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	4.42588	0.495
17DAP/reference	0.99098	0.642
27DAP/reference	0.94966	0.467
39DAP/reference	1.07682	0.602
41DAP/reference	1.31718	0.024
42DAP/reference	1.31414	0.011
43DAP/reference	1.19555	0.735
47DAP/reference	0.96331	0.434
52DAP/reference	1.23641	0.065
57DAP/reference	1.18072	0.172

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80492	0.092
17DAP/reference	1.04011	0.9
27DAP/reference	0.86739	0.092
39DAP/reference	0.98218	0.591
41DAP/reference	0.95545	0.459
42DAP/reference	1.2645	0.04
43DAP/reference	1.19713	0.259
47DAP/reference	1.12225	0.704
52DAP/reference	1.19685	0.278
57DAP/reference	1.31953	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.60421	0.916
26DAP/20DAP	1.26537	0.33
34DAP/26DAP	1.10727	1
51DAP/34DAP	1.10295	0.627
52DAP/51DAP	0.81183	1
53DAP/52DAP	0.89962	0.835
55DAP/53DAP	0.88876	0.43
57DAP/55DAP	1.58163	0.728
62DAP/57DAP	1.23102	0.868
68DAP/62DAP	0.73256	0.429
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.29613	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	1.33884	0.106
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.14557
Mature Eggplant/Ripe Tomato	0.30128	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.87299	0.883
1-1-2/M82	1.17507	1
12-2/M82	1.59646	1
12-4/M82	1.05071	1
1-3/M82	0.68351	0.501
2-1-1/M82	0.90867	0.784
2-1/M82	0.83624	0.519
2-6/M82	1.32414	0.505
3-2/M82	0.45827	1
4-1-1/M82	0.94023	1
4-1/M82	1.26998	1
4-3-2/M82	0.99657	1
4-3/M82	1.18071	0.268
5-3/M82	0.62204	0.49
6-2/M82	1.1781	1
6-3/M82	0.99276	1
7-1/M82	N/A	N/A
7-2/M82	1.04393	1
9-3-2/M82	1.14205	1

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	0.76544
IL7-3/WTpooled	1.64974
IL12-4/WTpooled	1.34893	0.695
IL1-4/WTpooled	0.70873	0.457
WT/WTpooled	1.04643	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	0.97207	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01937	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.02799	1
DC3000/delta hrp 24h	0.79058	0.198

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1401	0.229
DC3000 delta B/DC3000 delta AB	0.99988	1

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	0.98623	1
Var 0h	0.94083	0.933
Var 12h I row2-row1	1.039	0.736
Var 12h NI row2-row1	0.96418	0.906
Var 36h I row2-row1	1.0443	1
Var 36h NI row2-row1	1.16293	1
Var 60h I row2-row1	1.17259	1
Var 60h NI row2-row1	0.94106	0.818
Time course 0hI-0hNI	0.99404	1
Time course 12hI-12hNI	0.96444	0.628
Time course 36hI-36hNI	0.9678	0.504
Time course 60hI-60hNI	1.15704	0.053

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)	1.05529	0.248
transgenic ySAMdc/azygous control (red)	0.90463	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	1.28501	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.78528	0.229