Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.10.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99991	0.927
27DAP/17DAP	0.89504	0.766
39DAP/27DAP	0.82758	0.435
41DAP/39DAP	1.59063	0.261
42DAP/41DAP	0.94814	1
43DAP/42DAP	1.00667	0.937
47DAP/43DAP	1.1193	0.702
52DAP/47DAP	1.18619	0.671
57DAP/52DAP	0.98754	0.982

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92736	0.121
17DAP/reference	1.03273	0.384
27DAP/reference	1.01403	0.831
39DAP/reference	1.05245	0.186
41DAP/reference	1.00059	1
42DAP/reference	0.94209	0.026
43DAP/reference	0.99531	0.861
47DAP/reference	0.89888	0.032
52DAP/reference	0.87663	0.143
57DAP/reference	0.90295	0.054

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94624	0.509
27DAP/17DAP	1.01199	0.973
39DAP/27DAP	1.04389	0.636
41DAP/39DAP	1.00268	1
42DAP/41DAP	1.01187	1
43DAP/42DAP	1.00247	1
47DAP/43DAP	1.04031	0.827
52DAP/47DAP	0.95771	0.919
57DAP/52DAP	1.01069	1
57DAP/7DAP	1.11465	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89845	0.066
17DAP/reference	1.0035	1
27DAP/reference	1.06493	0.02
39DAP/reference	0.99651	0.64
41DAP/reference	0.94777	0.076
42DAP/reference	0.94078	0.029
43DAP/reference	1.01024	0.83
47DAP/reference	0.86684	0.101
52DAP/reference	0.94363	0.15
57DAP/reference	1.01932	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02462	0.704
17DAP/reference	1.02718	0.658
27DAP/reference	0.96979	0.483
39DAP/reference	0.91798	0.168
41DAP/reference	0.92875	0.212
42DAP/reference	0.99195	0.594
43DAP/reference	1.01279	0.949
47DAP/reference	1.08557	0.225
52DAP/reference	1.0208	0.882
57DAP/reference	1.10852	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97342	0.362
17DAP/reference	0.98493	0.647
27DAP/reference	1.00245	1
39DAP/reference	1.00272	1
41DAP/reference	0.97556	0.417
42DAP/reference	0.88386	0.361
43DAP/reference	0.92109	0.305
47DAP/reference	0.9705	0.465
52DAP/reference	1.16253	0.575
57DAP/reference	0.6591	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03279	0.945
26DAP/20DAP	0.9464	0.512
34DAP/26DAP	0.98081	0.961
51DAP/34DAP	1.02469	0.869
52DAP/51DAP	0.9772	1
53DAP/52DAP	N/A	N/A
55DAP/53DAP	0.88018
57DAP/55DAP	0.93185	0.715
62DAP/57DAP	0.93884	0.681
68DAP/62DAP	0.97741	0.834
68DAP/14DAP	0.9893	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92006	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.76012	0.165
Immature Eggplant/Mature Eggplant	2.11424	0.062
Ripe Pepper/Ripe Tomato	0.98758	1
Mature Eggplant/Ripe Tomato	0.38397	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99501	1
1-1-2/M82	0.92798	1
12-2/M82	1.15055	1
12-4/M82	0.96284	1
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	1.03288	1
3-2/M82	0.95648
4-1-1/M82	0.78914
4-1/M82	1.04632	1
4-3-2/M82	0.8892	1
4-3/M82	1.02425	1
5-3/M82	0.92923	1
6-2/M82	N/A	N/A
6-3/M82	1.01834	1
7-1/M82	0.76823
7-2/M82	0.97926	0.881
9-3-2/M82	0.79806	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.73612
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	2.55106	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99071	1
DC3000/delta hrp 6h	1.03672
DC3000/delta hrp 12h	1.0221	1
DC3000/delta hrp 24h	1.18608	0.336

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11989	0.047
DC3000 delta B/DC3000 delta AB	1.1289	0.298

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97827	1
Var 0h	0.90897	1
Var 12h I row2-row1	1.09899	0.242
Var 12h NI row2-row1	0.95943	0.82
Var 36h I row2-row1	0.86493	0.805
Var 36h NI row2-row1	0.88831	0.432
Var 60h I row2-row1	1.30417	1
Var 60h NI row2-row1	1.0746	1
Time course 0hI-0hNI	1.11254	0.719
Time course 12hI-12hNI	1.03912	0.788
Time course 36hI-36hNI	0.99757	0.708
Time course 60hI-60hNI	1.32582	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)	0.84223	0.485
transgenic ySAMdc/azygous control (breaker)	1.18062	1
transgenic ySAMdc/azygous control (red)	0.80417	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.11297	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19009	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.38302	0.381
Manapal/WT (red)	0.80501	0.242