Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.20.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03427	0.927
27DAP/17DAP	1.31433	0.8
39DAP/27DAP	1.15492	1
41DAP/39DAP	1.017	0.988
42DAP/41DAP	0.75602	0.774
43DAP/42DAP	1.15349	0.873
47DAP/43DAP	0.73349	0.251
52DAP/47DAP	1.27506	0.718
57DAP/52DAP	0.75229	0.6

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93036	0.262
17DAP/reference	1.00615	0.813
27DAP/reference	0.9874	0.741
39DAP/reference	0.9849	0.797
41DAP/reference	1.06597	0.421
42DAP/reference	0.89445	0.01
43DAP/reference	1.04601	0.73
47DAP/reference	0.96978	0.345
52DAP/reference	0.93324	0.25
57DAP/reference	0.91898	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17966	0.398
27DAP/17DAP	0.91782	0.782
39DAP/27DAP	1.14704	0.636
41DAP/39DAP	0.98474	1
42DAP/41DAP	1.0312	0.927
43DAP/42DAP	1.08172	0.788
47DAP/43DAP	1.02925	0.951
52DAP/47DAP	0.95145	0.834
57DAP/52DAP	1.05794	1
57DAP/7DAP	0.96354	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08193	0.613
17DAP/reference	0.83398	0.044
27DAP/reference	0.77489	0.01
39DAP/reference	0.84312	0.109
41DAP/reference	0.83011	0.07
42DAP/reference	0.86974	0.106
43DAP/reference	0.75407	0.016
47DAP/reference	1.03305	0.901
52DAP/reference	1.0298	1
57DAP/reference	0.9623	0.353

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9295	0.342
17DAP/reference	0.88098	0.124
27DAP/reference	0.9569	0.423
39DAP/reference	0.8619	0.06
41DAP/reference	0.86129	0.085
42DAP/reference	0.83738	0.012
43DAP/reference	0.87573	0.17
47DAP/reference	0.9288	0.154
52DAP/reference	0.86108	0.015
57DAP/reference	0.89193	0.125

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91159	0.104
17DAP/reference	0.85004	0.205
27DAP/reference	0.74179	0.031
39DAP/reference	0.85595	0.046
41DAP/reference	0.91562	0.167
42DAP/reference	0.99051	0.816
43DAP/reference	0.88107	0.281
47DAP/reference	0.96407	0.357
52DAP/reference	0.94324	0.538
57DAP/reference	0.87705	0.171

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15908	0.966
26DAP/20DAP	1.52693	0.196
34DAP/26DAP	1.00418	1
51DAP/34DAP	1.78098	0.034
52DAP/51DAP	0.73838	0.151
53DAP/52DAP	0.93958	0.621
55DAP/53DAP	0.89065	0.515
57DAP/55DAP	0.93853	0.688
62DAP/57DAP	1.13217	0.902
68DAP/62DAP	0.99862	0.863
68DAP/14DAP	1.01744	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77462	0.079

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.95574	0.658
Mature Green Tomato/Ripe Tomato	0.6474	0.042
Immature Eggplant/Mature Eggplant	0.93543	0.493
Ripe Pepper/Ripe Tomato	0.54967	0.293
Mature Eggplant/Ripe Tomato	0.97712	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.2618
1-1-2/M82	0.85553	0.958
12-2/M82	1.07315
12-4/M82	0.8945
1-3/M82	1.13358
2-1-1/M82	1.20173
2-1/M82	1.13731	1
2-6/M82	N/A	N/A
3-2/M82	1.17938
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.97892	1
5-3/M82	0.94488
6-2/M82	1.28167	1
6-3/M82	1.1274	1
7-1/M82	1.45503
7-2/M82	N/A	N/A
9-3-2/M82	0.88375

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	N/A	N/A
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	1.11507	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92867	1
DC3000/delta hrp 6h	1.09927	1
DC3000/delta hrp 12h	1.02456	1
DC3000/delta hrp 24h	0.49121

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11626	1
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	0.95177	1
Exp 36h	0.85456	0.504
Exp 60h	1.15019	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00156	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.90192	0.565
Var 12h NI row2-row1	1.21503	1
Var 36h I row2-row1	1.1007	0.908
Var 36h NI row2-row1	0.63444	0.549
Var 60h I row2-row1	0.959	0.952
Var 60h NI row2-row1	0.83277	0.69
Time course 0hI-0hNI	0.96085	0.755
Time course 12hI-12hNI	0.97808	0.889
Time course 36hI-36hNI	1.22373	0.005
Time course 60hI-60hNI	3.20592	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)	1.09498	0.277
transgenic ySAMdc/azygous control (breaker)	1.06024	1
transgenic ySAMdc/azygous control (red)	1.01019	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00604	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92353	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92329	1
Manapal/WT (break)	0.99909	1
Manapal/WT (red)	1.04207	1