Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.1.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77414	0.141
27DAP/17DAP	1.29319	0.799
39DAP/27DAP	1.08108	1
41DAP/39DAP	1.21448	0.494
42DAP/41DAP	1.44928	0.899
43DAP/42DAP	0.92116	0.874
47DAP/43DAP	0.91023	0.671
52DAP/47DAP	0.85393	0.609
57DAP/52DAP	0.95295	0.947

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.31302	0.024
17DAP/reference	0.32995	0.007
27DAP/reference	0.39525	0.012
39DAP/reference	0.36043	0.009
41DAP/reference	0.39688	0.013
42DAP/reference	0.54707	0.003
43DAP/reference	0.50907	0.017
47DAP/reference	0.45155	0.001
52DAP/reference	0.39949	0.014
57DAP/reference	0.76222	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25866	0.144
27DAP/17DAP	0.98829	0.943
39DAP/27DAP	0.89163	0.4
41DAP/39DAP	1.24519	0.727
42DAP/41DAP	1.14741	0.886
43DAP/42DAP	1.21451	0.273
47DAP/43DAP	1.10025	0.939
52DAP/47DAP	1.20488	0.455
57DAP/52DAP	1.1147	0.65
57DAP/7DAP	0.97499

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.30735	0.039
17DAP/reference	0.38976	0.011
27DAP/reference	0.53579	0.01
39DAP/reference	0.34535	0.011
41DAP/reference	0.89389	0.235
42DAP/reference	0.52914	0.015
43DAP/reference	0.2892	0.008
47DAP/reference	0.28843	0.026
52DAP/reference	0.36645	0.01
57DAP/reference	0.3631	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.33688	0.005
17DAP/reference	0.27755	0.003
27DAP/reference	0.33092	0.005
39DAP/reference	0.36414	0.01
41DAP/reference	0.53415	0.013
42DAP/reference	0.38465	0.011
43DAP/reference	0.25781	0.002
47DAP/reference	0.40295	0.008
52DAP/reference	0.31594	0.003
57DAP/reference	0.3176	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.34874	0.025
17DAP/reference	0.49655	0.063
27DAP/reference	0.28775	0.02
39DAP/reference	0.29314	0.006
41DAP/reference	0.33901	0.014
42DAP/reference	0.52568	0.028
43DAP/reference	0.45243	0.018
47DAP/reference	0.22638	0.005
52DAP/reference	0.32122	0.047
57DAP/reference	0.53346	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01081	1
26DAP/20DAP	0.3861
34DAP/26DAP	1.16851	0.819
51DAP/34DAP	1.06018
52DAP/51DAP	1.88734	0.038
53DAP/52DAP	0.87759	0.684
55DAP/53DAP	0.94933	0.876
57DAP/55DAP	0.58829	0.071
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.97683	0.885
68DAP/14DAP	1.18836	0.85

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.13413	0.035

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.71449
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.4376	0.742
1-1-2/M82	1.08974	1
12-2/M82	1.52244	0.519
12-4/M82	1.06741	1
1-3/M82	0.73111	0.376
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.86014	1
3-2/M82	0.84116
4-1-1/M82	0.83306	1
4-1/M82	2.02303
4-3-2/M82	0.8151
4-3/M82	0.6917	0.72
5-3/M82	1.00938	1
6-2/M82	0.7584
6-3/M82	0.96402	1
7-1/M82	0.69686
7-2/M82	0.87004	0.796
9-3-2/M82	0.75819

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04375	0.277
IL2-6/WTpooled	0.9301	1
IL7-5/WTpooled	0.77952	1
IL7-3/WTpooled	0.99121	1
IL12-4/WTpooled	1.0339	1
IL1-4/WTpooled	1.21784	1
WT/WTpooled	0.88084	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	0.86094	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08765	0.875
DC3000/delta hrp 6h	1.08883	1
DC3000/delta hrp 12h	0.53769	1
DC3000/delta hrp 24h	2.91121	0.032

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26034	0.134
DC3000 delta B/DC3000 delta AB	1.004	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.54974	1
Exp 36h	0.73557	0.661
Exp 60h	0.60603	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00699	1
Var 0h	1.31072	0.782
Var 12h I row2-row1	1.07836
Var 12h NI row2-row1	0.8238
Var 36h I row2-row1	1.06195
Var 36h NI row2-row1	1.02664
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.84414	0.63
Time course 0hI-0hNI	0.58419	0.051
Time course 12hI-12hNI	0.9716	0.972
Time course 36hI-36hNI	0.77221	0.03
Time course 60hI-60hNI	0.57239	0.319

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)	1.18949	0.798
transgenic ySAMdc/azygous control (breaker)	1.77849	0.162
transgenic ySAMdc/azygous control (red)	1.08941	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91611	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19758	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35343	0.14
Manapal/WT (break)	0.74504	0.333
Manapal/WT (red)	0.83501	0.424