Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.8.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07013	0.851
27DAP/17DAP	1.10709	0.864
39DAP/27DAP	0.94253	0.652
41DAP/39DAP	1.16555	0.442
42DAP/41DAP	0.95904	1
43DAP/42DAP	1.123	0.949
47DAP/43DAP	1.05293	0.943
52DAP/47DAP	0.94572	0.81
57DAP/52DAP	1.17089	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86422	0.109
17DAP/reference	0.95632	0.474
27DAP/reference	1.05548	0.569
39DAP/reference	0.89498	0.124
41DAP/reference	0.80575	0.049
42DAP/reference	0.81585	0.002
43DAP/reference	0.95433	0.519
47DAP/reference	0.88581	0.05
52DAP/reference	0.96537	0.449
57DAP/reference	1.03762	0.876

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98708	0.763
27DAP/17DAP	0.98032	0.821
39DAP/27DAP	1.02133	0.811
41DAP/39DAP	1.05327	0.853
42DAP/41DAP	0.99434	0.892
43DAP/42DAP	1.10329	0.031
47DAP/43DAP	0.97017	0.861
52DAP/47DAP	1.00584	0.991
57DAP/52DAP	0.98891	0.798
57DAP/7DAP	1.02612	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24887	0.252
17DAP/reference	1.1783	0.399
27DAP/reference	1.05158	0.974
39DAP/reference	0.99035	0.64
41DAP/reference	1.02321	1
42DAP/reference	0.94321	0.338
43DAP/reference	1.09601	0.118
47DAP/reference	0.87419	0.044
52DAP/reference	0.89955	0.196
57DAP/reference	1.03843	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94555	0.487
17DAP/reference	0.96512	0.548
27DAP/reference	0.92722	0.24
39DAP/reference	0.90007	0.227
41DAP/reference	1.02108	1
42DAP/reference	0.92405	0.098
43DAP/reference	0.75386	0.04
47DAP/reference	3.56641	0.544
52DAP/reference	1.0359	0.596
57DAP/reference	0.75156	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11477	0.575
17DAP/reference	0.91643	0.335
27DAP/reference	0.9759	0.566
39DAP/reference	0.97671	0.504
41DAP/reference	1.00951	1
42DAP/reference	0.7872	0.036
43DAP/reference	0.87142	0.088
47DAP/reference	0.86062	0.145
52DAP/reference	0.78294	0.228
57DAP/reference	0.82358	0.075

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.27527	0.631
26DAP/20DAP	0.91566	1
34DAP/26DAP	1.05583	0.819
51DAP/34DAP	0.91535	0.402
52DAP/51DAP	1.00668	0.954
53DAP/52DAP	1.02416	0.882
55DAP/53DAP	0.97999	0.796
57DAP/55DAP	1.10521	0.805
62DAP/57DAP	1.07966	0.515
68DAP/62DAP	1.21367	0.166
68DAP/14DAP	1.11653	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88954	0.057

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.81949
Mature Green Tomato/Ripe Tomato	0.93868	0.522
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.17634	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.79727
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	1.08213
4-1-1/M82	N/A	N/A
4-1/M82	0.95698
4-3-2/M82	0.93119	1
4-3/M82	N/A	N/A
5-3/M82	0.91198
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.13157
7-2/M82	N/A	N/A
9-3-2/M82	0.93904	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.08259	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.8582
IL12-4/WTpooled	0.83393	0.581
IL1-4/WTpooled	1.011	1
WT/WTpooled	0.96274	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	0.73799	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91494	1
DC3000/delta hrp 6h	0.9215	0.95
DC3000/delta hrp 12h	1.14834	1
DC3000/delta hrp 24h	0.8358	0.109

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.69539	0.052
DC3000 delta B/DC3000 delta AB	0.71105	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.63431	0.328
Exp 36h	0.96716	0.943
Exp 60h	0.70423	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97131	1
Var 0h	0.40821	1
Var 12h I row2-row1	0.82954	0.363
Var 12h NI row2-row1	0.94686	0.82
Var 36h I row2-row1	0.8719	0.575
Var 36h NI row2-row1	1.088	1
Var 60h I row2-row1	1.47309	0.562
Var 60h NI row2-row1	1.05804	0.904
Time course 0hI-0hNI	1.01012	0.867
Time course 12hI-12hNI	0.9725	0.742
Time course 36hI-36hNI	0.85728	0.049
Time course 60hI-60hNI	0.27771	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)	1.1255	0.36
transgenic ySAMdc/azygous control (breaker)	0.71636	0.251
transgenic ySAMdc/azygous control (red)	1.03645	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9637	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.66396	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.49406	0.172
Manapal/WT (break)	1.43285	0.381
Manapal/WT (red)	1.04337	1