Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.20.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.57644	0.119
27DAP/17DAP	0.82962	0.579
39DAP/27DAP	0.57709	0.425
41DAP/39DAP	1.12269	0.78
42DAP/41DAP	1.53989	0.434
43DAP/42DAP	1.11868	0.976
47DAP/43DAP	1.29851	0.702
52DAP/47DAP	1.48499	0.334
57DAP/52DAP	1.32872	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81667	0.055
17DAP/reference	1.02016	0.717
27DAP/reference	1.0637	0.75
39DAP/reference	0.9874	0.828
41DAP/reference	1.015	1
42DAP/reference	0.80219	0.002
43DAP/reference	0.95952	0.555
47DAP/reference	0.90544	0.023
52DAP/reference	0.9721	0.504
57DAP/reference	0.95412	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10192	1
27DAP/17DAP	1.90896
39DAP/27DAP	0.70944	0.231
41DAP/39DAP	1.1926	0.861
42DAP/41DAP	0.59676	0.045
43DAP/42DAP	1.05699	0.83
47DAP/43DAP	1.32237	0.464
52DAP/47DAP	1.6735	0.19
57DAP/52DAP	1.19546	0.67
57DAP/7DAP	1.28901	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86479	0.146
17DAP/reference	0.80693	0.044
27DAP/reference	0.83434	0.013
39DAP/reference	0.61866	0.014
41DAP/reference	0.7267	0.047
42DAP/reference	0.60325	0.01
43DAP/reference	0.68095	0.012
47DAP/reference	0.64962	0.035
52DAP/reference	0.74039	0.046
57DAP/reference	0.85319	0.074

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84695	0.164
17DAP/reference	0.95098	0.399
27DAP/reference	0.928	0.483
39DAP/reference	0.75642	0.022
41DAP/reference	0.8918	0.268
42DAP/reference	0.76125	0.061
43DAP/reference	1.04098	1
47DAP/reference	0.98855	0.643
52DAP/reference	0.91675	0.22
57DAP/reference	0.78967	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81772	0.092
17DAP/reference	0.92393	0.335
27DAP/reference	0.95247	0.337
39DAP/reference	0.94135	0.246
41DAP/reference	0.91494	0.371
42DAP/reference	0.99038	0.816
43DAP/reference	0.98755	0.614
47DAP/reference	0.85969	0.076
52DAP/reference	0.95075	0.623
57DAP/reference	1.41179	0.151

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89397	0.672
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.02266	1
51DAP/34DAP	1.30549	1
52DAP/51DAP	1.28521	1
53DAP/52DAP	1.16773	0.806
55DAP/53DAP	1.07534	0.991
57DAP/55DAP	1.10975	1
62DAP/57DAP	1.81413	0.515
68DAP/62DAP	1.11146	1
68DAP/14DAP	2.00999	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.31806	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.07157	0.016
Immature Eggplant/Mature Eggplant	0.89804
Ripe Pepper/Ripe Tomato	0.23545	0.224
Mature Eggplant/Ripe Tomato	0.16157	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.93353
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	N/A	N/A
3-2/M82	N/A	N/A
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	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82956	0.321
IL2-6/WTpooled	0.92504
IL7-5/WTpooled	1.13569	1
IL7-3/WTpooled	1.04474	1
IL12-4/WTpooled	0.89188	0.543
IL1-4/WTpooled	1.63342	0.421
WT/WTpooled	0.99622	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	1.15234	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92303
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.67479
DC3000/delta hrp 24h	0.93056	0.761

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
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	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	1.349	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.31052
Var 12h NI row2-row1	0.74721
Var 36h I row2-row1	0.63237
Var 36h NI row2-row1	1.08735	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.88196	1
Time course 0hI-0hNI	1.33537	0.867
Time course 12hI-12hNI	0.55297
Time course 36hI-36hNI	1.19994	0.826
Time course 60hI-60hNI	1.01719

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)	1.2958	0.482
transgenic ySAMdc/azygous control (breaker)	1.35621	1
transgenic ySAMdc/azygous control (red)	1.02832	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90928	0.075

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.49543	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96752	1
Manapal/WT (break)	1.07902	1
Manapal/WT (red)	1.35735	0.413