Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.20.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03461	0.811
27DAP/17DAP	1.16786	0.92
39DAP/27DAP	0.97889	0.719
41DAP/39DAP	0.95686	0.825
42DAP/41DAP	1.48757	0.913
43DAP/42DAP	0.9307	0.867
47DAP/43DAP	1.04595	0.904
52DAP/47DAP	1.23279	0.652
57DAP/52DAP	0.88849	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99365	0.679
17DAP/reference	1.28537	0.112
27DAP/reference	1.17803	0.049
39DAP/reference	1.15733	0.119
41DAP/reference	1.46098	0.014
42DAP/reference	1.06881	0.252
43DAP/reference	1.4136	0.163
47DAP/reference	1.13549	0.026
52DAP/reference	0.92691	0.152
57DAP/reference	1.28666

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29295	0.662
27DAP/17DAP	0.98662	0.943
39DAP/27DAP	1.02582	1
41DAP/39DAP	1.54194	0.362
42DAP/41DAP	0.76128	0.167
43DAP/42DAP	1.30471	0.413
47DAP/43DAP	0.98495	0.928
52DAP/47DAP	2.81804	0.048
57DAP/52DAP	2.58765	0.065
57DAP/7DAP	1.25686	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95701	0.326
17DAP/reference	0.84312	0.012
27DAP/reference	0.75337	0.01
39DAP/reference	0.84498	0.011
41DAP/reference	0.84871	0.09
42DAP/reference	0.77689	0.016
43DAP/reference	0.82177	0.031
47DAP/reference	0.80681	0.035
52DAP/reference	0.8734	0.179
57DAP/reference	0.87811	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97928	0.756
17DAP/reference	0.95465	0.41
27DAP/reference	0.90841	0.292
39DAP/reference	0.9007	0.089
41DAP/reference	1.26625	0.062
42DAP/reference	0.94519	0.321
43DAP/reference	1.00262	0.681
47DAP/reference	1.0937	0.343
52DAP/reference	0.91592	0.101
57DAP/reference	1.07154	0.252

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81986	0.074
17DAP/reference	0.96292	0.56
27DAP/reference	0.75949	0.023
39DAP/reference	0.7914	0.028
41DAP/reference	0.91689	0.293
42DAP/reference	0.78365	0.071
43DAP/reference	0.7726	0.051
47DAP/reference	0.99225	0.593
52DAP/reference	0.76202	0.204
57DAP/reference	1.00894	0.765

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.81202	0.611
26DAP/20DAP	0.91512	1
34DAP/26DAP	1.41531	0.542
51DAP/34DAP	2.19925	0.098
52DAP/51DAP	1.98516	0.096
53DAP/52DAP	0.57611	0.393
55DAP/53DAP	1.29279	0.904
57DAP/55DAP	1.1445
62DAP/57DAP	1.3341	0.115
68DAP/62DAP	0.90029	0.747
68DAP/14DAP	1.80381	0.436

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7783	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.14423
Mature Green Tomato/Ripe Tomato	0.82183
Immature Eggplant/Mature Eggplant	0.4514
Ripe Pepper/Ripe Tomato	0.30643	0.224
Mature Eggplant/Ripe Tomato	0.73638	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.7582	0.69
1-1-2/M82	0.93029	1
12-2/M82	0.98329
12-4/M82	1.09011	1
1-3/M82	0.58809	0.378
2-1-1/M82	1.10005
2-1/M82	N/A	N/A
2-6/M82	1.05057	1
3-2/M82	0.84366
4-1-1/M82	1.00779
4-1/M82	0.91426	1
4-3-2/M82	0.83815
4-3/M82	0.47717
5-3/M82	0.83327	0.419
6-2/M82	0.91335	1
6-3/M82	1.14514	1
7-1/M82	0.81887
7-2/M82	1.05047
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91134	0.321
IL2-6/WTpooled	1.14898
IL7-5/WTpooled	1.00474
IL7-3/WTpooled	0.79186
IL12-4/WTpooled	0.78403
IL1-4/WTpooled	1.09024	1
WT/WTpooled	N/A	N/A

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00235	1
DC3000/delta hrp 6h	0.99962	0.95
DC3000/delta hrp 12h	0.98074	1
DC3000/delta hrp 24h	1.06439	0.69

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	1.09361	1
Exp 36h	1.07318	1
Exp 60h	0.8488	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92593	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.76072	0.338
Var 12h NI row2-row1	1.08928	0.649
Var 36h I row2-row1	1.07202	1
Var 36h NI row2-row1	1.17883	0.276
Var 60h I row2-row1	0.99931	1
Var 60h NI row2-row1	1.09887	0.904
Time course 0hI-0hNI	0.99082	1
Time course 12hI-12hNI	0.80368	0.752
Time course 36hI-36hNI	1.53981	0.28
Time course 60hI-60hNI	2.08355	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)	1.72675	0.36
transgenic ySAMdc/azygous control (breaker)	0.45403	0.15
transgenic ySAMdc/azygous control (red)	1.24877	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0257	0.525

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.70857	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.65712	1
Manapal/WT (break)	0.62745	1
Manapal/WT (red)	0.57903	0.181