Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.17.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25728	0.512
27DAP/17DAP	1.37719	0.646
39DAP/27DAP	1.11916	0.762
41DAP/39DAP	1.29997	0.575
42DAP/41DAP	1.04909	0.971
43DAP/42DAP	0.75489	0.554
47DAP/43DAP	0.99178	0.879
52DAP/47DAP	1.30867	0.584
57DAP/52DAP	0.90328	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23733	0.384
17DAP/reference	1.06444	0.476
27DAP/reference	0.9371	0.497
39DAP/reference	1.31295	0.04
41DAP/reference	1.4662	0.014
42DAP/reference	1.31737	0.006
43DAP/reference	1.04168	0.73
47DAP/reference	1.1251	0.215
52DAP/reference	1.07831	0.548
57DAP/reference	1.00834	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02509	0.858
27DAP/17DAP	0.98867	0.943
39DAP/27DAP	1.27262	0.062
41DAP/39DAP	0.99144	1
42DAP/41DAP	0.96734	0.662
43DAP/42DAP	1.21056	0.028
47DAP/43DAP	1.05213	0.724
52DAP/47DAP	1.04542	0.816
57DAP/52DAP	1.20107	0.199
57DAP/7DAP	1.21035	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05085	1
17DAP/reference	0.72375	0.011
27DAP/reference	0.70092	0.01
39DAP/reference	0.89291	0.095
41DAP/reference	0.82665	0.02
42DAP/reference	0.86124	0.038
43DAP/reference	1.0299	0.923
47DAP/reference	1.27897	0.054
52DAP/reference	0.84564	0.027
57DAP/reference	0.87964	0.047

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99587	0.951
17DAP/reference	1.30238	0.756
27DAP/reference	0.96044	0.519
39DAP/reference	1.28172	0.29
41DAP/reference	1.23706	0.301
42DAP/reference	1.45279	0.064
43DAP/reference	1.29348	0.392
47DAP/reference	1.2477	0.795
52DAP/reference	1.12477	0.471
57DAP/reference	1.29191	0.051

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92895	0.311
17DAP/reference	0.99319	0.739
27DAP/reference	0.78331	0.023
39DAP/reference	0.80049	0.043
41DAP/reference	0.84135	0.148
42DAP/reference	1.11213	0.576
43DAP/reference	0.87976	0.047
47DAP/reference	1.15119	0.388
52DAP/reference	0.76962	0.153
57DAP/reference	0.94562	0.43

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.52867	0.966
26DAP/20DAP	0.95235	1
34DAP/26DAP	1.10296	1
51DAP/34DAP	1.07335	0.814
52DAP/51DAP	0.98209	1
53DAP/52DAP	0.90402	0.505
55DAP/53DAP	1.01284	1
57DAP/55DAP	0.88851	0.464
62DAP/57DAP	0.98573	0.994
68DAP/62DAP	1.03457	0.912
68DAP/14DAP	0.68387	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.61089	0.061

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.46463	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.29618
Mature Eggplant/Ripe Tomato	0.08396	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99635
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.34984	0.694
1-3/M82	1.429	0.248
2-1-1/M82	0.74711
2-1/M82	1.46778
2-6/M82	0.88696	1
3-2/M82	N/A	N/A
4-1-1/M82	1.40102
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.65094	1
5-3/M82	1.01411	1
6-2/M82	1.29551
6-3/M82	0.82459	1
7-1/M82	N/A	N/A
7-2/M82	0.86769
9-3-2/M82	1.186	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.12275	0.659
IL7-5/WTpooled	0.62264
IL7-3/WTpooled	0.85538	1
IL12-4/WTpooled	0.88431	1
IL1-4/WTpooled	1.23934	1
WT/WTpooled	1.01282	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	1.34755	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97863	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.93445	1
DC3000/delta hrp 24h	1.34815	0.129

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05392	0.333
DC3000 delta B/DC3000 delta AB	1.22324	0.183

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	0.98941	1
Var 0h	1.23941	0.936
Var 12h I row2-row1	1.05289	0.473
Var 12h NI row2-row1	1.05571	1
Var 36h I row2-row1	1.05979	1
Var 36h NI row2-row1	0.94538	0.791
Var 60h I row2-row1	0.96365	0.832
Var 60h NI row2-row1	0.94931	1
Time course 0hI-0hNI	0.98459	0.936
Time course 12hI-12hNI	1.11579	0.071
Time course 36hI-36hNI	1.2356	0.006
Time course 60hI-60hNI	1.24112	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.08568	1
transgenic ySAMdc/azygous control (red)	0.93967	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08083	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)	1.61378	0.381
Manapal/WT (red)	1.26251	1