Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.20.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15397	0.77
27DAP/17DAP	1.35917	0.732
39DAP/27DAP	1.18256	0.87
41DAP/39DAP	1.18661	0.473
42DAP/41DAP	0.88414	1
43DAP/42DAP	0.98297	0.93
47DAP/43DAP	1.01689	0.926
52DAP/47DAP	1.33906	0.608
57DAP/52DAP	1.07463	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99573	0.743
17DAP/reference	1.07689	0.154
27DAP/reference	1.02737	0.612
39DAP/reference	0.9978	0.975
41DAP/reference	1.05477	0.667
42DAP/reference	0.98212	0.359
43DAP/reference	1.00726	1
47DAP/reference	1.00663	1
52DAP/reference	0.8999	0.223
57DAP/reference	0.84944	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93655	0.47
27DAP/17DAP	1.00233	1
39DAP/27DAP	1.09569	0.471
41DAP/39DAP	1.07044	0.748
42DAP/41DAP	0.9785	0.768
43DAP/42DAP	1.01809	0.699
47DAP/43DAP	0.93664	0.439
52DAP/47DAP	1.05009	0.819
57DAP/52DAP	0.98272	0.784
57DAP/7DAP	1.02949	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98888	0.682
17DAP/reference	0.82742	0.019
27DAP/reference	0.76077	0.01
39DAP/reference	0.83939	0.011
41DAP/reference	0.76538	0.025
42DAP/reference	0.6501	0.015
43DAP/reference	0.78711	0.038
47DAP/reference	0.87552	0.222
52DAP/reference	0.81684	0.046
57DAP/reference	0.88171	0.042

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03489	0.687
17DAP/reference	0.95126	0.223
27DAP/reference	0.87103	0.212
39DAP/reference	0.97033	0.485
41DAP/reference	0.88685	0.071
42DAP/reference	0.92225	0.121
43DAP/reference	0.85876	0.191
47DAP/reference	0.89842	0.154
52DAP/reference	0.95213	0.121
57DAP/reference	0.94703	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92283	0.249
17DAP/reference	0.96266	0.579
27DAP/reference	0.72448	0.038
39DAP/reference	0.85222	0.063
41DAP/reference	0.86438	0.019
42DAP/reference	0.80441	0.028
43DAP/reference	0.83793	0.11
47DAP/reference	1.03135	0.82
52DAP/reference	0.80045	0.184
57DAP/reference	0.79482	0.048

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08292	0.85
26DAP/20DAP	0.87389	0.228
34DAP/26DAP	1.04484	1
51DAP/34DAP	0.99922	0.967
52DAP/51DAP	0.99361	1
53DAP/52DAP	0.97109	0.862
55DAP/53DAP	0.99072	0.886
57DAP/55DAP	1.20097	0.348
62DAP/57DAP	1.16756	0.257
68DAP/62DAP	1.01744	0.885
68DAP/14DAP	1.20514	0.504

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00905	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.7298	0.068
Mature Green Tomato/Ripe Tomato	0.71458	0.072
Immature Eggplant/Mature Eggplant	3.20257	0.05
Ripe Pepper/Ripe Tomato	0.18342	0.224
Mature Eggplant/Ripe Tomato	0.95487	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10513	0.742
1-1-2/M82	0.99175	1
12-2/M82	1.06504	1
12-4/M82	0.90766	1
1-3/M82	0.95927	1
2-1-1/M82	1.04425	1
2-1/M82	1.21183	1
2-6/M82	1.10717	0.594
3-2/M82	1.06108
4-1-1/M82	1.00769	1
4-1/M82	0.94063	1
4-3-2/M82	0.97398	1
4-3/M82	1.17067	1
5-3/M82	1.04855	1
6-2/M82	1.11089	1
6-3/M82	1.0036	1
7-1/M82	0.95013	1
7-2/M82	1.06561	1
9-3-2/M82	0.81381

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.31514
IL2-6/WTpooled	1.15844
IL7-5/WTpooled	0.58599
IL7-3/WTpooled	1.07775	1
IL12-4/WTpooled	1.02531	0.839
IL1-4/WTpooled	1.02209	1
WT/WTpooled	0.82725	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	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	1.00486	1
DC3000/delta hrp 6h	1.33922	1
DC3000/delta hrp 12h	1.04238	1
DC3000/delta hrp 24h	1.03082	0.743

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05217	0.355
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	1.08989	1
Exp 36h	1.43975	1
Exp 60h	1.02111	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99263	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.12744	0.204
Var 12h NI row2-row1	1.00838	1
Var 36h I row2-row1	0.86061	1
Var 36h NI row2-row1	0.90355	0.645
Var 60h I row2-row1	1.14609	0.562
Var 60h NI row2-row1	1.14845	0.904
Time course 0hI-0hNI	1.08928	0.867
Time course 12hI-12hNI	1.04981	0.747
Time course 36hI-36hNI	0.87534	0.19
Time course 60hI-60hNI	1.31306	0.015

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)	1.10414	0.863
transgenic ySAMdc/azygous control (breaker)	1.39559	0.178
transgenic ySAMdc/azygous control (red)	1.14743	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06404	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86625	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.17479	0.084
Manapal/WT (break)	1.11332	1
Manapal/WT (red)	0.67275	0.424