Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.1.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24501	0.205
27DAP/17DAP	1.23793	0.833
39DAP/27DAP	1.18118	0.524
41DAP/39DAP	1.04705	0.887
42DAP/41DAP	1.40627	0.931
43DAP/42DAP	0.85762	0.776
47DAP/43DAP	1.23027	0.776
52DAP/47DAP	0.80507	0.518
57DAP/52DAP	0.84883	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99141	0.693
17DAP/reference	0.97419	0.567
27DAP/reference	0.93218	0.24
39DAP/reference	1.00836	0.889
41DAP/reference	1.06839	0.085
42DAP/reference	1.46614	0.003
43DAP/reference	1.15804	0.163
47DAP/reference	1.0179	1
52DAP/reference	1.01211	0.73
57DAP/reference	1.00829	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35586	0.045
27DAP/17DAP	0.8182	0.132
39DAP/27DAP	1.22193	0.241
41DAP/39DAP	0.97257	0.968
42DAP/41DAP	1.02653	0.935
43DAP/42DAP	1.00116	1
47DAP/43DAP	1.09069	0.54
52DAP/47DAP	0.91778	0.694
57DAP/52DAP	0.92672	0.581
57DAP/7DAP	1.05322	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02682	0.894
17DAP/reference	0.98636	0.518
27DAP/reference	1.08645	0.131
39DAP/reference	1.11347	0.013
41DAP/reference	1.07461	0.28
42DAP/reference	1.1423	0.018
43DAP/reference	1.03169	0.746
47DAP/reference	1.18055	0.049
52DAP/reference	1.19276	0.007
57DAP/reference	1.11509	0.17

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09854	0.238
17DAP/reference	1.17594	0.031
27DAP/reference	1.37758	0.019
39DAP/reference	1.27052	0.109
41DAP/reference	1.5466	0.008
42DAP/reference	1.24741	0.046
43DAP/reference	1.43868	0.014
47DAP/reference	1.29841	0.026
52DAP/reference	1.16459	0.041
57DAP/reference	1.4783	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97193	0.526
17DAP/reference	1.11908	0.551
27DAP/reference	0.92459	0.032
39DAP/reference	1.04795	0.264
41DAP/reference	1.17022	0.134
42DAP/reference	1.25057	0.056
43DAP/reference	1.29179	0.16
47DAP/reference	0.99259	0.626
52DAP/reference	0.91269	0.296
57DAP/reference	1.33047	0.074

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21455	0.916
26DAP/20DAP	0.79561	0.223
34DAP/26DAP	1.03126	1
51DAP/34DAP	1.0015	0.957
52DAP/51DAP	1.0912	0.733
53DAP/52DAP	0.99622	0.99
55DAP/53DAP	1.24607	0.28
57DAP/55DAP	1.02725	0.944
62DAP/57DAP	1.01087	1
68DAP/62DAP	1.09128	0.878
68DAP/14DAP	1.22137	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.38955	0.229

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.54004	0.108
Mature Green Tomato/Ripe Tomato	2.14911	0.015
Immature Eggplant/Mature Eggplant	1.97219	0.05
Ripe Pepper/Ripe Tomato	1.31424	0.258
Mature Eggplant/Ripe Tomato	1.57469	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12614	0.877
1-1-2/M82	1.08825	1
12-2/M82	1.20613	1
12-4/M82	1.05869	1
1-3/M82	1.13017	0.26
2-1-1/M82	1.024	1
2-1/M82	0.76607	0.519
2-6/M82	0.95887	1
3-2/M82	0.87371	0.455
4-1-1/M82	0.8477	1
4-1/M82	1.2042	0.853
4-3-2/M82	0.98508	1
4-3/M82	0.91529	1
5-3/M82	1.00163	1
6-2/M82	1.01741	1
6-3/M82	1.04845	1
7-1/M82	1.08395	0.925
7-2/M82	0.99102	1
9-3-2/M82	1.2262	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07805	0.493
IL2-6/WTpooled	1.00035	1
IL7-5/WTpooled	1.61608	0.554
IL7-3/WTpooled	1.15636	1
IL12-4/WTpooled	1.25587	0.839
IL1-4/WTpooled	1.06709	1
WT/WTpooled	1.02777	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	1.02122	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04271	0.921
DC3000/delta hrp 6h	1.16718	0.978
DC3000/delta hrp 12h	1.01393	1
DC3000/delta hrp 24h	1.07786	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.93846	0.252
DC3000 delta B/DC3000 delta AB	0.91115	0.217

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.61194	1
Exp 36h	1.26922	0.693
Exp 60h	1.5474	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97905	1
Var 0h	0.64908	1
Var 12h I row2-row1	0.96752	0.948
Var 12h NI row2-row1	0.91598	0.494
Var 36h I row2-row1	1.11195	0.908
Var 36h NI row2-row1	1.02782	1
Var 60h I row2-row1	0.83219	0.582
Var 60h NI row2-row1	0.99385	1
Time course 0hI-0hNI	1.00998	0.867
Time course 12hI-12hNI	0.95574	0.501
Time course 36hI-36hNI	0.95674	0.403
Time course 60hI-60hNI	0.87116	0.047

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)	0.71112	0.267
transgenic ySAMdc/azygous control (breaker)	0.74198	0.173
transgenic ySAMdc/azygous control (red)	0.9888	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.15273	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85616	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95539	1
Manapal/WT (break)	0.87617	1
Manapal/WT (red)	0.69017	0.181