Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.3.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95232	0.671
27DAP/17DAP	1.15708	0.845
39DAP/27DAP	1.18755	0.838
41DAP/39DAP	1.40041	0.179
42DAP/41DAP	0.95207	1
43DAP/42DAP	0.94349	0.877
47DAP/43DAP	0.96184	0.851
52DAP/47DAP	1.3011	0.405
57DAP/52DAP	1.00376	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98871	0.562
17DAP/reference	0.98872	0.737
27DAP/reference	0.96612	0.654
39DAP/reference	0.93846	0.651
41DAP/reference	0.90281	0.267
42DAP/reference	0.98636	0.547
43DAP/reference	N/A	N/A
47DAP/reference	0.95554	0.279
52DAP/reference	0.90386	0.055
57DAP/reference	4.08788

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86231	0.135
27DAP/17DAP	1.04786	0.954
39DAP/27DAP	1.14221	0.505
41DAP/39DAP	1.08422	0.807
42DAP/41DAP	1.06747	0.415
43DAP/42DAP	0.97548	0.801
47DAP/43DAP	1.06097	0.756
52DAP/47DAP	0.9529	0.834
57DAP/52DAP	0.9645	0.532
57DAP/7DAP	1.18545	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9798	0.326
17DAP/reference	0.91084	0.031
27DAP/reference	0.93945	0.028
39DAP/reference	0.98544	0.474
41DAP/reference	0.92308	0.073
42DAP/reference	0.94135	0.026
43DAP/reference	0.91629	0.076
47DAP/reference	1.04541	0.67
52DAP/reference	0.9151	0.115
57DAP/reference	0.86377	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07449	0.091
17DAP/reference	1.05414	0.375
27DAP/reference	1.1929	0.032
39DAP/reference	1.08335	0.412
41DAP/reference	0.95337	0.357
42DAP/reference	0.97011	0.433
43DAP/reference	1.10335	0.324
47DAP/reference	0.99409	0.66
52DAP/reference	1.03231	0.667
57DAP/reference	1.1741	0.072

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96941	0.391
17DAP/reference	0.91994	0.064
27DAP/reference	0.87801	0.032
39DAP/reference	0.94735	0.092
41DAP/reference	0.88496	0.018
42DAP/reference	0.97321	0.445
43DAP/reference	0.95215	0.179
47DAP/reference	0.9099	0.033
52DAP/reference	0.83068	0.208
57DAP/reference	0.8709	0.071

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01832	0.966
26DAP/20DAP	1.0661	0.793
34DAP/26DAP	1.06658	1
51DAP/34DAP	0.92675	0.317
52DAP/51DAP	0.96684	1
53DAP/52DAP	1.04987	0.806
55DAP/53DAP	1.19321	0.241
57DAP/55DAP	1.02268	1
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.08176	0.926
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1834	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99114	0.847
Mature Green Tomato/Ripe Tomato	0.79015	0.226
Immature Eggplant/Mature Eggplant	1.25394	0.076
Ripe Pepper/Ripe Tomato	0.97737	1
Mature Eggplant/Ripe Tomato	0.53393	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02169	1
1-1-2/M82	0.99804	1
12-2/M82	1.05306	0.61
12-4/M82	1.02671	0.694
1-3/M82	1.08135	1
2-1-1/M82	0.87926	0.92
2-1/M82	0.94564	0.74
2-6/M82	0.98205	1
3-2/M82	1.03121
4-1-1/M82	1.05664	1
4-1/M82	0.82897	1
4-3-2/M82	1.02632	1
4-3/M82	0.94355	1
5-3/M82	1.05133	1
6-2/M82	1.00643	1
6-3/M82	0.9883	1
7-1/M82	1.01727	1
7-2/M82	0.99655	1
9-3-2/M82	0.88886	1

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	1.04632	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02439	0.774
DC3000/delta hrp 6h	0.99595	0.95
DC3000/delta hrp 12h	1.08803	1
DC3000/delta hrp 24h	1.17114	0.043

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.5569	0.087
DC3000 delta B/DC3000 delta AB	1.10128	0.341

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.24963	1
Exp 36h	1.35197	1
Exp 60h	1.24054	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99515	1
Var 0h	0.49284	0.933
Var 12h I row2-row1	1.29394	0.254
Var 12h NI row2-row1	1.05574	1
Var 36h I row2-row1	0.97937	1
Var 36h NI row2-row1	0.91219	0.45
Var 60h I row2-row1	1.00495	1
Var 60h NI row2-row1	1.16021	0.904
Time course 0hI-0hNI	1.11404	0.852
Time course 12hI-12hNI	1.03127	0.818
Time course 36hI-36hNI	1.01163	1
Time course 60hI-60hNI	1.89744	0.009

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)	1.01225	0.748
transgenic ySAMdc/azygous control (breaker)	0.81039	0.139
transgenic ySAMdc/azygous control (red)	0.84488	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07458	0.047

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69865	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.70693	1
Manapal/WT (break)	1.00478	1
Manapal/WT (red)	0.65151	0.181