Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.16.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.73011	0.123
27DAP/17DAP	0.94985	0.923
39DAP/27DAP	1.31395	0.285
41DAP/39DAP	0.74119	0.171
42DAP/41DAP	0.94685	1
43DAP/42DAP	0.84549	0.729
47DAP/43DAP	0.88175	0.591
52DAP/47DAP	1.19597	0.646
57DAP/52DAP	0.93801	0.932

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00322	0.806
17DAP/reference	0.8491	0.028
27DAP/reference	1.00258	0.904
39DAP/reference	0.8721	0.043
41DAP/reference	0.86	0.154
42DAP/reference	0.98878	0.425
43DAP/reference	0.86768	0.155
47DAP/reference	1.01971	0.91
52DAP/reference	1.11193	0.141
57DAP/reference	1.17995	0.041

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80571	0.072
27DAP/17DAP	1.05219	0.811
39DAP/27DAP	1.09461	0.41
41DAP/39DAP	0.9747	0.973
42DAP/41DAP	0.85507	0.086
43DAP/42DAP	0.79094	0.07
47DAP/43DAP	1.13215	0.5
52DAP/47DAP	0.70485	0.079
57DAP/52DAP	1.0743	1
57DAP/7DAP	0.80946	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04117	0.761
17DAP/reference	1.16537	0.18
27DAP/reference	1.14214	0.301
39DAP/reference	1.00435	1
41DAP/reference	1.08212	0.812
42DAP/reference	1.11719	0.405
43DAP/reference	0.97081	0.459
47DAP/reference	1.04707	0.901
52DAP/reference	1.23864	0.036
57DAP/reference	1.29957	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10704	0.177
17DAP/reference	0.9602	0.499
27DAP/reference	0.91127	0.269
39DAP/reference	0.99039	0.586
41DAP/reference	0.98077	0.432
42DAP/reference	0.9905	0.594
43DAP/reference	0.95534	0.468
47DAP/reference	0.99487	0.678
52DAP/reference	0.94122	0.327
57DAP/reference	0.97042	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99972	0.699
17DAP/reference	0.99586	0.825
27DAP/reference	1.14714	0.207
39DAP/reference	1.01614	0.819
41DAP/reference	1.12958	0.621
42DAP/reference	0.9348	0.287
43DAP/reference	0.98385	0.614
47DAP/reference	0.96392	0.434
52DAP/reference	1.09148	0.491
57DAP/reference	1.18295	0.279

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.78021	0.328
26DAP/20DAP	1.7317	0.114
34DAP/26DAP	0.95192	0.848
51DAP/34DAP	1.06108	0.937
52DAP/51DAP	0.70764	1
53DAP/52DAP	2.12698	0.067
55DAP/53DAP	1.23367	0.79
57DAP/55DAP	0.68365	0.085
62DAP/57DAP	0.55343	0.005
68DAP/62DAP	3.8158	0.253
68DAP/14DAP	2.20592	0.419

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.20918	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.41031	0.078
Mature Green Tomato/Ripe Tomato	3.08736	0.026
Immature Eggplant/Mature Eggplant	1.5691	0.051
Ripe Pepper/Ripe Tomato	2.47356	0.256
Mature Eggplant/Ripe Tomato	2.02737	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95105	0.944
1-1-2/M82	1.14386	1
12-2/M82	0.84059	0.955
12-4/M82	1.12409	1
1-3/M82	2.18712
2-1-1/M82	0.87294	1
2-1/M82	0.82618	0.519
2-6/M82	0.94316
3-2/M82	1.32212
4-1-1/M82	N/A	N/A
4-1/M82	1.34591
4-3-2/M82	1.06716	0.508
4-3/M82	0.91308	1
5-3/M82	1.14584	0.496
6-2/M82	1.81193
6-3/M82	0.97499	1
7-1/M82	1.55824	0.925
7-2/M82	1.54159
9-3-2/M82	N/A	N/A

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	8.72094
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	1.71957	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00312	1
DC3000/delta hrp 6h	0.95634	0.95
DC3000/delta hrp 12h	0.9324	1
DC3000/delta hrp 24h	1.52661	0.118

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.2682	0.16
DC3000 delta B/DC3000 delta AB	1.38169	0.094

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.19381	1
Exp 36h	1.16359	1
Exp 60h	1.1269	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00692	1
Var 0h	1.01168	1
Var 12h I row2-row1	1.24416	0.544
Var 12h NI row2-row1	1.08307	0.649
Var 36h I row2-row1	1.2436	0.41
Var 36h NI row2-row1	0.92856	0.706
Var 60h I row2-row1	0.70987	0.439
Var 60h NI row2-row1	0.83342	0.516
Time course 0hI-0hNI	1.14246	0.486
Time course 12hI-12hNI	1.01343	1
Time course 36hI-36hNI	1.61699	0.011
Time course 60hI-60hNI	2.40093	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)	0.94327	0.338
transgenic ySAMdc/azygous control (breaker)	0.96509	0.49
transgenic ySAMdc/azygous control (red)	0.94902	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12194	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9695	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83508	1
Manapal/WT (break)	0.86324	0.299
Manapal/WT (red)	0.90909	0.503