Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.18.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93109	0.627
27DAP/17DAP	0.99907	0.934
39DAP/27DAP	1.11781	0.84
41DAP/39DAP	1.6008	0.084
42DAP/41DAP	1.12848	1
43DAP/42DAP	0.77554	0.495
47DAP/43DAP	1.16971	0.943
52DAP/47DAP	1.80971	0.418
57DAP/52DAP	0.72382	0.583

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9539	0.2
17DAP/reference	0.98385	0.737
27DAP/reference	0.97302	0.538
39DAP/reference	0.99085	0.885
41DAP/reference	1.00496	1
42DAP/reference	0.9766	0.218
43DAP/reference	0.95846	0.519
47DAP/reference	0.97136	0.258
52DAP/reference	0.91607	0.111
57DAP/reference	0.93811	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78129	0.048
27DAP/17DAP	1.42573	0.047
39DAP/27DAP	1.23709	0.718
41DAP/39DAP	0.88913	0.849
42DAP/41DAP	0.88223	0.451
43DAP/42DAP	1.37632	0.699
47DAP/43DAP	1.08093	0.906
52DAP/47DAP	1.61616	0.319
57DAP/52DAP	1.03053	0.73
57DAP/7DAP	1.05023	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70698	0.157
17DAP/reference	0.82295	0.02
27DAP/reference	0.97154	0.698
39DAP/reference	0.88303	0.264
41DAP/reference	0.90022	0.298
42DAP/reference	1.15915	0.233
43DAP/reference	1.21305	0.124
47DAP/reference	0.77229	0.04
52DAP/reference	1.06225	1
57DAP/reference	0.83275	0.24

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01848	0.712
17DAP/reference	0.98586	0.611
27DAP/reference	0.9119	0.269
39DAP/reference	0.87697	0.022
41DAP/reference	0.92032	0.188
42DAP/reference	0.88867	0.019
43DAP/reference	0.94968	0.37
47DAP/reference	0.91681	0.018
52DAP/reference	0.98124	0.433
57DAP/reference	1.01851	0.827

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89209	0.362
17DAP/reference	0.74901	0.182
27DAP/reference	0.84223	0.319
39DAP/reference	0.93156	0.43
41DAP/reference	0.66904	0.293
42DAP/reference	0.63035	0.108
43DAP/reference	0.85867	0.116
47DAP/reference	0.89404	0.041
52DAP/reference	1.02892	0.952
57DAP/reference	0.74058	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97736	1
26DAP/20DAP	1.00787
34DAP/26DAP	N/A	N/A
51DAP/34DAP	1.09544	0.98
52DAP/51DAP	N/A	N/A
53DAP/52DAP	0.93898	0.803
55DAP/53DAP	0.75434	0.389
57DAP/55DAP	0.95901	0.819
62DAP/57DAP	0.87796	0.681
68DAP/62DAP	0.94315	0.722
68DAP/14DAP	1.26739	0.636

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76931

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.55152	0.136
Mature Green Tomato/Ripe Tomato	0.78076	0.096
Immature Eggplant/Mature Eggplant	0.59697
Ripe Pepper/Ripe Tomato	5.24721	1
Mature Eggplant/Ripe Tomato	0.81752	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15116	0.742
1-1-2/M82	0.96412	1
12-2/M82	1.16102	1
12-4/M82	0.86229	1
1-3/M82	1.08401	0.26
2-1-1/M82	1.1718
2-1/M82	0.83186
2-6/M82	1.04861	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.03676	1
4-1/M82	1.02361	1
4-3-2/M82	0.82296
4-3/M82	1.02428	1
5-3/M82	1.02426	1
6-2/M82	0.90594	1
6-3/M82	1.1518	1
7-1/M82	N/A	N/A
7-2/M82	1.18761	1
9-3-2/M82	0.86856	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.75321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.13793
IL7-3/WTpooled	1.34023
IL12-4/WTpooled	1.0582	1
IL1-4/WTpooled	0.93933	0.834
WT/WTpooled	0.97805	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	1.79242	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06617	0.914
DC3000/delta hrp 6h	0.74956	0.786
DC3000/delta hrp 12h	0.85217	1
DC3000/delta hrp 24h	1.01005	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.96293	0.943
Exp 60h	1.41592	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.76892	0.457
Var 12h I row2-row1	0.81189	0.565
Var 12h NI row2-row1	1.14428	1
Var 36h I row2-row1	1.15233	1
Var 36h NI row2-row1	0.72837
Var 60h I row2-row1	0.73382	0.582
Var 60h NI row2-row1	0.7515	0.63
Time course 0hI-0hNI	0.95199
Time course 12hI-12hNI	0.95297	0.799
Time course 36hI-36hNI	4.26581	0.004
Time course 60hI-60hNI	10.8499	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)	1.55005	0.863
transgenic ySAMdc/azygous control (breaker)	1.48393	1
transgenic ySAMdc/azygous control (red)	1.32027	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00113	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19375	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35877	0.14
Manapal/WT (break)	0.90573	1
Manapal/WT (red)	0.89898	0.315