Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.8.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.48852	0.697
27DAP/17DAP	6.06951	0.032
39DAP/27DAP	3.47959	0.029
41DAP/39DAP	2.10627	0.357
42DAP/41DAP	1.61545	0.141
43DAP/42DAP	1.78591	0.348
47DAP/43DAP	0.75136	0.29
52DAP/47DAP	0.425	0.034
57DAP/52DAP	0.62629	0.649

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94199	0.39
17DAP/reference	1.10094	0.04
27DAP/reference	1.0139	1
39DAP/reference	1.03203	0.504
41DAP/reference	1.10359	0.047
42DAP/reference	0.84236	0.01
43DAP/reference	0.98545	0.763
47DAP/reference	0.90422	0.006
52DAP/reference	0.87326	0.195
57DAP/reference	0.92246	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21011	0.749
27DAP/17DAP	1.22275	0.383
39DAP/27DAP	4.28619	0.043
41DAP/39DAP	1.82163	0.108
42DAP/41DAP	0.90384	0.399
43DAP/42DAP	0.77639	0.132
47DAP/43DAP	2.33794	0.013
52DAP/47DAP	0.60207	0.161
57DAP/52DAP	1.0595	0.697
57DAP/7DAP	4.8651	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.65363	0.033
17DAP/reference	1.12063	0.437
27DAP/reference	0.81751	0.015
39DAP/reference	1.3896	1
41DAP/reference	1.3165	0.023
42DAP/reference	1.12596	0.889
43DAP/reference	0.9681	0.44
47DAP/reference	1.06672	0.659
52DAP/reference	1.28183	0.008
57DAP/reference	1.17993	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95185	0.457
17DAP/reference	1.103	0.12
27DAP/reference	0.89093	0.181
39DAP/reference	1.20913	0.073
41DAP/reference	0.97386	0.393
42DAP/reference	1.02085	1
43DAP/reference	1.10728	0.466
47DAP/reference	1.08183	0.321
52DAP/reference	1.26413	0.006
57DAP/reference	1.08505	0.477

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24941	0.03
17DAP/reference	1.27062	0.273
27DAP/reference	1.29465	0.111
39DAP/reference	1.25667	0.048
41DAP/reference	1.21579	0.108
42DAP/reference	1.04018	0.818
43DAP/reference	1.02048	0.738
47DAP/reference	0.89151	0.269
52DAP/reference	1.09676	0.826
57DAP/reference	0.71286	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03685	1
26DAP/20DAP	0.82804	0.512
34DAP/26DAP	0.80638	0.431
51DAP/34DAP	0.98872	0.927
52DAP/51DAP	0.82317	1
53DAP/52DAP	1.13736	0.797
55DAP/53DAP	0.9522	0.648
57DAP/55DAP	1.0617	0.968
62DAP/57DAP	0.91546	0.681
68DAP/62DAP	0.69644	0.037
68DAP/14DAP	0.72566	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	11.5693	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	11.6023	0.058
Mature Green Tomato/Ripe Tomato	0.76151	0.377
Immature Eggplant/Mature Eggplant	0.55849	0.292
Ripe Pepper/Ripe Tomato	0.60514
Mature Eggplant/Ripe Tomato	2.08407	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.60596	1
12-2/M82	N/A	N/A
12-4/M82	0.73056
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	1.02172	0.967
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	2.86874	0.241
4-3/M82	0.73564
5-3/M82	1.17273	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	2.09742	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.93985	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.11011	1
IL12-4/WTpooled	1.09759	0.673
IL1-4/WTpooled	0.96301
WT/WTpooled	1.00627	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	0.97934	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.96252	0.95
DC3000/delta hrp 12h	1.06795	1
DC3000/delta hrp 24h	1.34552	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.30336
DC3000 delta B/DC3000 delta AB	0.88221	0.347

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.70042	1
Exp 36h	0.65829	0.374
Exp 60h	0.58688	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05896	1
Var 0h	0.91705	1
Var 12h I row2-row1	1.02063	0.692
Var 12h NI row2-row1	0.93879	0.82
Var 36h I row2-row1	1.29446	0.908
Var 36h NI row2-row1	1.03239	1
Var 60h I row2-row1	1.29017	0.502
Var 60h NI row2-row1	1.05008	0.904
Time course 0hI-0hNI	0.98179	0.942
Time course 12hI-12hNI	0.9081	0.173
Time course 36hI-36hNI	0.85905	0.032
Time course 60hI-60hNI	0.36028	0.005

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)	0.99143	0.931
transgenic ySAMdc/azygous control (breaker)	0.62831	0.173
transgenic ySAMdc/azygous control (red)	1.0232	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99836	0.911

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84201	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.45162	0.105
Manapal/WT (break)	0.84442	1
Manapal/WT (red)	0.97254	0.863