Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.2.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03582	0.891
27DAP/17DAP	1.25493	0.746
39DAP/27DAP	1.04626	1
41DAP/39DAP	1.0196	0.96
42DAP/41DAP	1.46045	0.196
43DAP/42DAP	0.81009	0.554
47DAP/43DAP	1.31052	0.223
52DAP/47DAP	1.17063	0.649
57DAP/52DAP	1.12475	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11092	0.179
17DAP/reference	0.95174	0.298
27DAP/reference	0.87573	0.095
39DAP/reference	0.93927	0.276
41DAP/reference	0.96887	0.542
42DAP/reference	1.05447	0.299
43DAP/reference	0.99785	0.904
47DAP/reference	1.09628	0.101
52DAP/reference	1.03733	0.663
57DAP/reference	0.92715	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11605	0.593
27DAP/17DAP	0.88915	0.537
39DAP/27DAP	1.30394	0.219
41DAP/39DAP	0.85762	0.53
42DAP/41DAP	1.26384	0.308
43DAP/42DAP	1.20781	0.25
47DAP/43DAP	1.04374	0.939
52DAP/47DAP	0.95128	0.77
57DAP/52DAP	1.0301	0.864
57DAP/7DAP	1.06278	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27629	0.038
17DAP/reference	1.52871	0.013
27DAP/reference	1.09863	0.804
39DAP/reference	1.15612	0.059
41DAP/reference	0.98811	0.589
42DAP/reference	1.14677	0.174
43DAP/reference	1.24314	0.02
47DAP/reference	1.0861	0.618
52DAP/reference	1.39897	0.066
57DAP/reference	1.37966	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04009	0.724
17DAP/reference	1.12243	0.143
27DAP/reference	1.11143	0.31
39DAP/reference	1.26022	0.097
41DAP/reference	1.08465	0.831
42DAP/reference	1.00534	0.655
43DAP/reference	1.26771	0.055
47DAP/reference	0.95066	0.261
52DAP/reference	1.17216	0.053
57DAP/reference	1.16267	0.123

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11806	0.048
17DAP/reference	1.10475	0.563
27DAP/reference	0.99435	0.805
39DAP/reference	1.10806	0.285
41DAP/reference	1.33935	0.02
42DAP/reference	1.17151	0.091
43DAP/reference	1.22237	0.128
47DAP/reference	0.95041	0.348
52DAP/reference	1.15795	0.448
57DAP/reference	1.24097	0.061

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95672	1
26DAP/20DAP	0.97468	1
34DAP/26DAP	0.4747
51DAP/34DAP	0.70082
52DAP/51DAP	0.88484	1
53DAP/52DAP	1.18144	0.697
55DAP/53DAP	1.23885	0.266
57DAP/55DAP	1.7414	0.779
62DAP/57DAP	1.08245	0.303
68DAP/62DAP	0.89775	0.668
68DAP/14DAP	1.06448	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.37815	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.32035	0.073
Mature Green Tomato/Ripe Tomato	0.75308	0.317
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.17703	1
Mature Eggplant/Ripe Tomato	0.28104	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09934	0.536
1-1-2/M82	1.04199	1
12-2/M82	0.81601
12-4/M82	0.84107	1
1-3/M82	0.72001
2-1-1/M82	0.98218	0.465
2-1/M82	N/A	N/A
2-6/M82	1.03418	0.695
3-2/M82	1.25749
4-1-1/M82	N/A	N/A
4-1/M82	1.16733
4-3-2/M82	1.18235
4-3/M82	1.32934	1
5-3/M82	1.04206	1
6-2/M82	0.79992	0.497
6-3/M82	1.02208	1
7-1/M82	0.8256
7-2/M82	1.09547	0.324
9-3-2/M82	1.19352

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.76951	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.12478	1
IL12-4/WTpooled	1.07599	0.695
IL1-4/WTpooled	0.84182
WT/WTpooled	1.02285	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	1.29941	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97145
DC3000/delta hrp 6h	0.99547	0.95
DC3000/delta hrp 12h	1.12684	1
DC3000/delta hrp 24h	1.18585	0.065

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.33112
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	0.93566	1
Exp 36h	1.10204	1
Exp 60h	1.11471	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.91233
Var 0h	0.95359	0.457
Var 12h I row2-row1	1.01298	1
Var 12h NI row2-row1	1.12986	1
Var 36h I row2-row1	0.79739	0.575
Var 36h NI row2-row1	0.60459	0.478
Var 60h I row2-row1	1.05369	1
Var 60h NI row2-row1	1.13932	0.904
Time course 0hI-0hNI	1.01105	1
Time course 12hI-12hNI	0.89411	0.058
Time course 36hI-36hNI	1.01171	0.975
Time course 60hI-60hNI	1.53542	0.009

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)	0.92487	0.299
transgenic ySAMdc/azygous control (breaker)	1.06399	1
transgenic ySAMdc/azygous control (red)	0.98365	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95931	0.107

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06024	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.23118	0.096
Manapal/WT (break)	1.16514	0.381
Manapal/WT (red)	0.96432	0.728