Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.9.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94106	0.664
27DAP/17DAP	0.87496	0.708
39DAP/27DAP	1.19949	0.539
41DAP/39DAP	0.77323	0.158
42DAP/41DAP	0.9987	1
43DAP/42DAP	0.95657	0.834
47DAP/43DAP	1.05333	0.842
52DAP/47DAP	1.07448	0.983
57DAP/52DAP	1.31168	0.652

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96184	0.277
17DAP/reference	1.05894	0.22
27DAP/reference	1.01231	0.847
39DAP/reference	1.07921	0.042
41DAP/reference	1.05696	0.451
42DAP/reference	0.95262	0.099
43DAP/reference	1.07941	0.111
47DAP/reference	1.03126	0.284
52DAP/reference	0.88511	0.096
57DAP/reference	1.14765	0.088

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0381	0.975
27DAP/17DAP	1.06026	0.9
39DAP/27DAP	1.04584	0.677
41DAP/39DAP	1.1733	0.727
42DAP/41DAP	1.00994	0.926
43DAP/42DAP	0.90188	0.235
47DAP/43DAP	1.01662	0.956
52DAP/47DAP	0.93353	0.686
57DAP/52DAP	0.98204	0.737
57DAP/7DAP	1.00766	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86554	0.246
17DAP/reference	0.92052	0.22
27DAP/reference	1.02695	1
39DAP/reference	1.02138	1
41DAP/reference	0.86309	0.166
42DAP/reference	1.14597	0.059
43DAP/reference	1.07483	0.637
47DAP/reference	0.92009	0.504
52DAP/reference	0.91755	0.304
57DAP/reference	1.09685	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01895	0.903
17DAP/reference	1.0592	0.613
27DAP/reference	0.852	0.292
39DAP/reference	0.93464	0.257
41DAP/reference	0.81439	0.108
42DAP/reference	0.94301	0.169
43DAP/reference	1.27227	0.142
47DAP/reference	0.95877	0.253
52DAP/reference	0.92022	0.351
57DAP/reference	1.05537	0.188

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88546	0.135
17DAP/reference	0.93451	0.348
27DAP/reference	0.90014	0.184
39DAP/reference	0.87987	0.037
41DAP/reference	1.01094	1
42DAP/reference	1.06658	0.6
43DAP/reference	0.86293	0.116
47DAP/reference	1.03822	0.519
52DAP/reference	0.93798	0.538
57DAP/reference	0.89733	0.304

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96509	1
26DAP/20DAP	1.27318	0.195
34DAP/26DAP	0.95572	0.927
51DAP/34DAP	0.78881	0.305
52DAP/51DAP	0.94758	1
53DAP/52DAP	1.05183	0.858
55DAP/53DAP	0.76947	0.111
57DAP/55DAP	1.13538	0.61
62DAP/57DAP	0.97265	0.994
68DAP/62DAP	0.89148	0.668
68DAP/14DAP	0.76848	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.67166	0.032

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.06728	0.666
Mature Green Tomato/Ripe Tomato	1.38149	0.478
Immature Eggplant/Mature Eggplant	0.6869	0.068
Ripe Pepper/Ripe Tomato	0.98867	1
Mature Eggplant/Ripe Tomato	1.14349	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92267
1-1-2/M82	0.75677
12-2/M82	N/A	N/A
12-4/M82	1.26625
1-3/M82	N/A	N/A
2-1-1/M82	1.14656
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.86962
4-1-1/M82	N/A	N/A
4-1/M82	1.66465
4-3-2/M82	1.63943
4-3/M82	N/A	N/A
5-3/M82	1.18744
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.93772
7-2/M82	0.87304
9-3-2/M82	1.32973

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.01371	1
IL7-5/WTpooled	1.9348
IL7-3/WTpooled	0.90762	1
IL12-4/WTpooled	1.35579	0.553
IL1-4/WTpooled	0.9893	1
WT/WTpooled	0.86825	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	1.05662	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94519	1
DC3000/delta hrp 6h	1.04153	1
DC3000/delta hrp 12h	0.87743
DC3000/delta hrp 24h	0.85915	0.152

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00974	1
DC3000 delta B/DC3000 delta AB	1.02409	0.726

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14479	1
Exp 36h	0.84368	0.699
Exp 60h	0.7563	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03377	1
Var 0h	1.3763	0.782
Var 12h I row2-row1	1.09289	0.795
Var 12h NI row2-row1	1.1868	1
Var 36h I row2-row1	1.21203	0.309
Var 36h NI row2-row1	0.94561	0.743
Var 60h I row2-row1	0.82785	0.374
Var 60h NI row2-row1	0.89558	0.431
Time course 0hI-0hNI	0.85473	0.188
Time course 12hI-12hNI	1.04599	0.654
Time course 36hI-36hNI	1.41935	0.023
Time course 60hI-60hNI	1.54035	0.037

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)	0.85918	0.314
transgenic ySAMdc/azygous control (breaker)	1.02803	1
transgenic ySAMdc/azygous control (red)	0.96193	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.909	0.052

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.60963	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.9229	0.083
Manapal/WT (break)	1.21228	1
Manapal/WT (red)	1.22283	0.108