Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.6.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00012	0.699
27DAP/17DAP	0.94982	0.913
39DAP/27DAP	0.82994	0.522
41DAP/39DAP	1.13006	0.758
42DAP/41DAP	1.16669	0.797
43DAP/42DAP	1.2113	0.768
47DAP/43DAP	1.31026	0.497
52DAP/47DAP	0.77266	0.43
57DAP/52DAP	1.18254	0.746

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17953	0.139
17DAP/reference	0.98482	0.737
27DAP/reference	1.21874	0.415
39DAP/reference	1.11811	0.229
41DAP/reference	0.98597	0.814
42DAP/reference	1.43163	0.001
43DAP/reference	1.13308	0.425
47DAP/reference	1.08044	0.318
52DAP/reference	0.90451	0.223
57DAP/reference	1.01945	0.927

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.7678	0.241
27DAP/17DAP	1.38871	0.268
39DAP/27DAP	0.96702	0.759
41DAP/39DAP	1.36983	0.59
42DAP/41DAP	0.97421	0.803
43DAP/42DAP	1.00899	1
47DAP/43DAP	0.93485	0.774
52DAP/47DAP	1.38201	0.412
57DAP/52DAP	1.18049	1
57DAP/7DAP	0.47986

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86548	0.183
17DAP/reference	0.98943	0.599
27DAP/reference	0.91825	0.283
39DAP/reference	1.1811	0.351
41DAP/reference	1.02487	0.767
42DAP/reference	1.145	0.233
43DAP/reference	1.78021	0.009
47DAP/reference	1.26251	0.353
52DAP/reference	1.67836	0.007
57DAP/reference	1.94925	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02642	0.907
17DAP/reference	1.20765	0.036
27DAP/reference	1.01829	0.79
39DAP/reference	1.43869	0.014
41DAP/reference	1.48538	0.005
42DAP/reference	1.28281	0.017
43DAP/reference	1.31413	0.114
47DAP/reference	1.22413	0.015
52DAP/reference	1.06425	0.368
57DAP/reference	1.11145	0.146

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82959	0.063
17DAP/reference	1.05207	0.712
27DAP/reference	1.02566	0.883
39DAP/reference	1.23081	0.175
41DAP/reference	0.98595	0.618
42DAP/reference	1.24739	0.091
43DAP/reference	1.30159	0.237
47DAP/reference	1.06529	1
52DAP/reference	1.24693	0.22
57DAP/reference	1.30905	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19108	0.786
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.57807	0.819
51DAP/34DAP	1.41684	0.511
52DAP/51DAP	0.634
53DAP/52DAP	1.50974	0.662
55DAP/53DAP	1.31864	0.061
57DAP/55DAP	0.87802	0.612
62DAP/57DAP	1.13798
68DAP/62DAP	1.50408
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98915	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.06446	0.765
Mature Green Tomato/Ripe Tomato	2.01007	0.02
Immature Eggplant/Mature Eggplant	0.26521	0.074
Ripe Pepper/Ripe Tomato	0.70222	1
Mature Eggplant/Ripe Tomato	0.68896	1

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	0.84631	0.358
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.65057
4-3-2/M82	0.89526
4-3/M82	N/A	N/A
5-3/M82	0.97156	1
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	0.88422	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.27744	0.277
IL2-6/WTpooled	1.03887	1
IL7-5/WTpooled	1.31396
IL7-3/WTpooled	1.02183	1
IL12-4/WTpooled	0.81692	0.539
IL1-4/WTpooled	1.09312	1
WT/WTpooled	1.03822	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	0.78756	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06686	0.921
DC3000/delta hrp 6h	2.16534	0.228
DC3000/delta hrp 12h	0.99646	1
DC3000/delta hrp 24h	1.54833	0.059

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	0.62413

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.35068	0.228
Exp 36h	1.35318	1
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	0.93906	1
Var 0h	1.02622	0.98
Var 12h I row2-row1	0.65701	0.627
Var 12h NI row2-row1	1.20899	0.649
Var 36h I row2-row1	1.04945	0.742
Var 36h NI row2-row1	0.90321	0.706
Var 60h I row2-row1	1.31705
Var 60h NI row2-row1	0.84439	0.977
Time course 0hI-0hNI	0.83802	0.799
Time course 12hI-12hNI	0.94179	0.436
Time course 36hI-36hNI	1.55575	0.19
Time course 60hI-60hNI	1.00411	1

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)	1.06474	0.654
transgenic ySAMdc/azygous control (breaker)	0.53046	0.139
transgenic ySAMdc/azygous control (red)	1.25744	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0329	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.24126	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.21321	0.14
Manapal/WT (break)	0.85492	1
Manapal/WT (red)	1.3932	1